# -*- coding: utf-8 -*- import ch.systemsx.cisd.openbis.generic.server.jython.api.v1.DataType as DataType tr = service.transaction() file_type_FASTQ_PHRED_64 = tr.getOrCreateNewFileFormatType('FASTQ_PHRED_64') file_type_FASTQ_PHRED_64.setDescription('FastQ Format with PHRED+64 quality values (as deliverd by Illumina GA Pipeline >= 1.3)') vocabulary_AGILENT_KIT = tr.getOrCreateNewVocabulary('AGILENT_KIT') vocabulary_AGILENT_KIT.setDescription(None) vocabulary_AGILENT_KIT.setUrlTemplate(None) vocabulary_AGILENT_KIT.setManagedInternally(False) vocabulary_AGILENT_KIT.setInternalNamespace(False) vocabulary_AGILENT_KIT.setChosenFromList(True) vocabulary_term_AGILENT_KIT_AGILENT_DNA_KIT_1000 = tr.createNewVocabularyTerm('AGILENT_DNA_KIT_1000') vocabulary_term_AGILENT_KIT_AGILENT_DNA_KIT_1000.setDescription(None) vocabulary_term_AGILENT_KIT_AGILENT_DNA_KIT_1000.setLabel(None) vocabulary_term_AGILENT_KIT_AGILENT_DNA_KIT_1000.setOrdinal(1) vocabulary_AGILENT_KIT.addTerm(vocabulary_term_AGILENT_KIT_AGILENT_DNA_KIT_1000) vocabulary_term_AGILENT_KIT_AGILENT_HIGH_SENSITIVITY_DNA_KIT = tr.createNewVocabularyTerm('AGILENT_HIGH_SENSITIVITY_DNA_KIT') vocabulary_term_AGILENT_KIT_AGILENT_HIGH_SENSITIVITY_DNA_KIT.setDescription(None) vocabulary_term_AGILENT_KIT_AGILENT_HIGH_SENSITIVITY_DNA_KIT.setLabel(None) vocabulary_term_AGILENT_KIT_AGILENT_HIGH_SENSITIVITY_DNA_KIT.setOrdinal(2) vocabulary_AGILENT_KIT.addTerm(vocabulary_term_AGILENT_KIT_AGILENT_HIGH_SENSITIVITY_DNA_KIT) vocabulary_ALIGNMENT_SOFTWARE = tr.getOrCreateNewVocabulary('ALIGNMENT_SOFTWARE') vocabulary_ALIGNMENT_SOFTWARE.setDescription('If an alignment is requested, which software package should be use?') vocabulary_ALIGNMENT_SOFTWARE.setUrlTemplate(None) vocabulary_ALIGNMENT_SOFTWARE.setManagedInternally(False) vocabulary_ALIGNMENT_SOFTWARE.setInternalNamespace(False) vocabulary_ALIGNMENT_SOFTWARE.setChosenFromList(True) vocabulary_term_ALIGNMENT_SOFTWARE_NOT_NEEDED = tr.createNewVocabularyTerm('NOT_NEEDED') vocabulary_term_ALIGNMENT_SOFTWARE_NOT_NEEDED.setDescription(None) vocabulary_term_ALIGNMENT_SOFTWARE_NOT_NEEDED.setLabel(None) vocabulary_term_ALIGNMENT_SOFTWARE_NOT_NEEDED.setOrdinal(1) vocabulary_ALIGNMENT_SOFTWARE.addTerm(vocabulary_term_ALIGNMENT_SOFTWARE_NOT_NEEDED) vocabulary_term_ALIGNMENT_SOFTWARE_ELAND = tr.createNewVocabularyTerm('ELAND') vocabulary_term_ALIGNMENT_SOFTWARE_ELAND.setDescription(None) vocabulary_term_ALIGNMENT_SOFTWARE_ELAND.setLabel(None) vocabulary_term_ALIGNMENT_SOFTWARE_ELAND.setOrdinal(2) vocabulary_ALIGNMENT_SOFTWARE.addTerm(vocabulary_term_ALIGNMENT_SOFTWARE_ELAND) vocabulary_term_ALIGNMENT_SOFTWARE_MAQ = tr.createNewVocabularyTerm('MAQ') vocabulary_term_ALIGNMENT_SOFTWARE_MAQ.setDescription(None) vocabulary_term_ALIGNMENT_SOFTWARE_MAQ.setLabel(None) vocabulary_term_ALIGNMENT_SOFTWARE_MAQ.setOrdinal(3) vocabulary_ALIGNMENT_SOFTWARE.addTerm(vocabulary_term_ALIGNMENT_SOFTWARE_MAQ) vocabulary_term_ALIGNMENT_SOFTWARE_BWA = tr.createNewVocabularyTerm('BWA') vocabulary_term_ALIGNMENT_SOFTWARE_BWA.setDescription(None) vocabulary_term_ALIGNMENT_SOFTWARE_BWA.setLabel(None) vocabulary_term_ALIGNMENT_SOFTWARE_BWA.setOrdinal(4) vocabulary_ALIGNMENT_SOFTWARE.addTerm(vocabulary_term_ALIGNMENT_SOFTWARE_BWA) vocabulary_term_ALIGNMENT_SOFTWARE_NOVOALIGN = tr.createNewVocabularyTerm('NOVOALIGN') vocabulary_term_ALIGNMENT_SOFTWARE_NOVOALIGN.setDescription(None) vocabulary_term_ALIGNMENT_SOFTWARE_NOVOALIGN.setLabel(None) vocabulary_term_ALIGNMENT_SOFTWARE_NOVOALIGN.setOrdinal(6) vocabulary_ALIGNMENT_SOFTWARE.addTerm(vocabulary_term_ALIGNMENT_SOFTWARE_NOVOALIGN) vocabulary_term_ALIGNMENT_SOFTWARE_BOWTIE = tr.createNewVocabularyTerm('BOWTIE') vocabulary_term_ALIGNMENT_SOFTWARE_BOWTIE.setDescription(None) vocabulary_term_ALIGNMENT_SOFTWARE_BOWTIE.setLabel(None) vocabulary_term_ALIGNMENT_SOFTWARE_BOWTIE.setOrdinal(7) vocabulary_ALIGNMENT_SOFTWARE.addTerm(vocabulary_term_ALIGNMENT_SOFTWARE_BOWTIE) vocabulary_CASAVA_VERSION = tr.getOrCreateNewVocabulary('CASAVA_VERSION') vocabulary_CASAVA_VERSION.setDescription('Post analyzing software') vocabulary_CASAVA_VERSION.setUrlTemplate(None) vocabulary_CASAVA_VERSION.setManagedInternally(False) vocabulary_CASAVA_VERSION.setInternalNamespace(False) vocabulary_CASAVA_VERSION.setChosenFromList(True) vocabulary_term_CASAVA_VERSION_18 = tr.createNewVocabularyTerm('1.8') vocabulary_term_CASAVA_VERSION_18.setDescription(None) vocabulary_term_CASAVA_VERSION_18.setLabel(None) vocabulary_term_CASAVA_VERSION_18.setOrdinal(1) vocabulary_CASAVA_VERSION.addTerm(vocabulary_term_CASAVA_VERSION_18) vocabulary_term_CASAVA_VERSION_17 = tr.createNewVocabularyTerm('1.7') vocabulary_term_CASAVA_VERSION_17.setDescription(None) vocabulary_term_CASAVA_VERSION_17.setLabel(None) vocabulary_term_CASAVA_VERSION_17.setOrdinal(2) vocabulary_CASAVA_VERSION.addTerm(vocabulary_term_CASAVA_VERSION_17) vocabulary_CLUSTER_GENERATION_KIT_VERSION = tr.getOrCreateNewVocabulary('CLUSTER_GENERATION_KIT_VERSION') vocabulary_CLUSTER_GENERATION_KIT_VERSION.setDescription('Version of the Cluster Generation Kit') vocabulary_CLUSTER_GENERATION_KIT_VERSION.setUrlTemplate(None) vocabulary_CLUSTER_GENERATION_KIT_VERSION.setManagedInternally(False) vocabulary_CLUSTER_GENERATION_KIT_VERSION.setInternalNamespace(False) vocabulary_CLUSTER_GENERATION_KIT_VERSION.setChosenFromList(True) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V3 = tr.createNewVocabularyTerm('TRUSEQ_CBOT_HS_V3') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V3.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V3.setLabel('TruSeq cBot-HS v3') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V3.setOrdinal(1) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V3) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V25 = tr.createNewVocabularyTerm('TRUSEQ_CBOT_HS_V2.5') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V25.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V25.setLabel('TruSeq cBot-HS v2.5') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V25.setOrdinal(2) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_HS_V25) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_GA_V2 = tr.createNewVocabularyTerm('TRUSEQ_CBOT_GA_V2') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_GA_V2.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_GA_V2.setLabel('TrueSeq cBot-GA v2') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_GA_V2.setOrdinal(3) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CBOT_GA_V2) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CS_GA_V5 = tr.createNewVocabularyTerm('TRUSEQ_CS_GA_V5') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CS_GA_V5.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CS_GA_V5.setLabel('TrueSeq CS-GA v5') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CS_GA_V5.setOrdinal(4) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_TRUSEQ_CS_GA_V5) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V5 = tr.createNewVocabularyTerm('V5') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V5.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V5.setLabel(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V5.setOrdinal(5) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V5) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V4 = tr.createNewVocabularyTerm('V4') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V4.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V4.setLabel(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V4.setOrdinal(6) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V4) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V2 = tr.createNewVocabularyTerm('V2') vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V2.setDescription(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V2.setLabel(None) vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V2.setOrdinal(7) vocabulary_CLUSTER_GENERATION_KIT_VERSION.addTerm(vocabulary_term_CLUSTER_GENERATION_KIT_VERSION_V2) vocabulary_CLUSTER_STATION = tr.getOrCreateNewVocabulary('CLUSTER_STATION') vocabulary_CLUSTER_STATION.setDescription('Cluster Station') vocabulary_CLUSTER_STATION.setUrlTemplate(None) vocabulary_CLUSTER_STATION.setManagedInternally(False) vocabulary_CLUSTER_STATION.setInternalNamespace(False) vocabulary_CLUSTER_STATION.setChosenFromList(True) vocabulary_term_CLUSTER_STATION_CBOT = tr.createNewVocabularyTerm('CBOT') vocabulary_term_CLUSTER_STATION_CBOT.setDescription(None) vocabulary_term_CLUSTER_STATION_CBOT.setLabel('cBot') vocabulary_term_CLUSTER_STATION_CBOT.setOrdinal(1) vocabulary_CLUSTER_STATION.addTerm(vocabulary_term_CLUSTER_STATION_CBOT) vocabulary_term_CLUSTER_STATION_CBOT2 = tr.createNewVocabularyTerm('CBOT2') vocabulary_term_CLUSTER_STATION_CBOT2.setDescription('Second cBot') vocabulary_term_CLUSTER_STATION_CBOT2.setLabel('cBot2') vocabulary_term_CLUSTER_STATION_CBOT2.setOrdinal(2) vocabulary_CLUSTER_STATION.addTerm(vocabulary_term_CLUSTER_STATION_CBOT2) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION = tr.getOrCreateNewVocabulary('CLUSTER_STATION_SOFTWARE_VERSION') vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.setDescription(None) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.setUrlTemplate(None) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.setManagedInternally(False) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.setInternalNamespace(False) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.setChosenFromList(True) vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_CBOT_14360 = tr.createNewVocabularyTerm('CBOT_1.4.36.0') vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_CBOT_14360.setDescription(None) vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_CBOT_14360.setLabel('cBot 1.4.36.0') vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_CBOT_14360.setOrdinal(1) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.addTerm(vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_CBOT_14360) vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_GALAXY_06 = tr.createNewVocabularyTerm('GALAXY_0.6') vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_GALAXY_06.setDescription('Old Cluster Station') vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_GALAXY_06.setLabel('Galaxy 0.6 Build 98') vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_GALAXY_06.setOrdinal(2) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.addTerm(vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_GALAXY_06) vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_NOT_KNOWN = tr.createNewVocabularyTerm('NOT_KNOWN') vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_NOT_KNOWN.setDescription(None) vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_NOT_KNOWN.setLabel(None) vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_NOT_KNOWN.setOrdinal(3) vocabulary_CLUSTER_STATION_SOFTWARE_VERSION.addTerm(vocabulary_term_CLUSTER_STATION_SOFTWARE_VERSION_NOT_KNOWN) vocabulary_CONTROL_LANE = tr.getOrCreateNewVocabulary('CONTROL_LANE') vocabulary_CONTROL_LANE.setDescription(None) vocabulary_CONTROL_LANE.setUrlTemplate(None) vocabulary_CONTROL_LANE.setManagedInternally(False) vocabulary_CONTROL_LANE.setInternalNamespace(False) vocabulary_CONTROL_LANE.setChosenFromList(True) vocabulary_term_CONTROL_LANE_1 = tr.createNewVocabularyTerm('1') vocabulary_term_CONTROL_LANE_1.setDescription(None) vocabulary_term_CONTROL_LANE_1.setLabel(None) vocabulary_term_CONTROL_LANE_1.setOrdinal(1) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_1) vocabulary_term_CONTROL_LANE_2 = tr.createNewVocabularyTerm('2') vocabulary_term_CONTROL_LANE_2.setDescription(None) vocabulary_term_CONTROL_LANE_2.setLabel(None) vocabulary_term_CONTROL_LANE_2.setOrdinal(2) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_2) vocabulary_term_CONTROL_LANE_3 = tr.createNewVocabularyTerm('3') vocabulary_term_CONTROL_LANE_3.setDescription(None) vocabulary_term_CONTROL_LANE_3.setLabel(None) vocabulary_term_CONTROL_LANE_3.setOrdinal(3) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_3) vocabulary_term_CONTROL_LANE_4 = tr.createNewVocabularyTerm('4') vocabulary_term_CONTROL_LANE_4.setDescription(None) vocabulary_term_CONTROL_LANE_4.setLabel(None) vocabulary_term_CONTROL_LANE_4.setOrdinal(4) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_4) vocabulary_term_CONTROL_LANE_5 = tr.createNewVocabularyTerm('5') vocabulary_term_CONTROL_LANE_5.setDescription(None) vocabulary_term_CONTROL_LANE_5.setLabel(None) vocabulary_term_CONTROL_LANE_5.setOrdinal(5) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_5) vocabulary_term_CONTROL_LANE_6 = tr.createNewVocabularyTerm('6') vocabulary_term_CONTROL_LANE_6.setDescription(None) vocabulary_term_CONTROL_LANE_6.setLabel(None) vocabulary_term_CONTROL_LANE_6.setOrdinal(6) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_6) vocabulary_term_CONTROL_LANE_7 = tr.createNewVocabularyTerm('7') vocabulary_term_CONTROL_LANE_7.setDescription(None) vocabulary_term_CONTROL_LANE_7.setLabel(None) vocabulary_term_CONTROL_LANE_7.setOrdinal(7) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_7) vocabulary_term_CONTROL_LANE_8 = tr.createNewVocabularyTerm('8') vocabulary_term_CONTROL_LANE_8.setDescription(None) vocabulary_term_CONTROL_LANE_8.setLabel(None) vocabulary_term_CONTROL_LANE_8.setOrdinal(8) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_8) vocabulary_term_CONTROL_LANE_NONE = tr.createNewVocabularyTerm('NONE') vocabulary_term_CONTROL_LANE_NONE.setDescription(None) vocabulary_term_CONTROL_LANE_NONE.setLabel(None) vocabulary_term_CONTROL_LANE_NONE.setOrdinal(9) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_NONE) vocabulary_term_CONTROL_LANE_0 = tr.createNewVocabularyTerm('0') vocabulary_term_CONTROL_LANE_0.setDescription(None) vocabulary_term_CONTROL_LANE_0.setLabel(None) vocabulary_term_CONTROL_LANE_0.setOrdinal(10) vocabulary_CONTROL_LANE.addTerm(vocabulary_term_CONTROL_LANE_0) vocabulary_CYCLES = tr.getOrCreateNewVocabulary('CYCLES') vocabulary_CYCLES.setDescription('Number of cycles') vocabulary_CYCLES.setUrlTemplate(None) vocabulary_CYCLES.setManagedInternally(False) vocabulary_CYCLES.setInternalNamespace(False) vocabulary_CYCLES.setChosenFromList(True) vocabulary_term_CYCLES_36 = tr.createNewVocabularyTerm('36') vocabulary_term_CYCLES_36.setDescription(None) vocabulary_term_CYCLES_36.setLabel(None) vocabulary_term_CYCLES_36.setOrdinal(1) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_36) vocabulary_term_CYCLES_50 = tr.createNewVocabularyTerm('50') vocabulary_term_CYCLES_50.setDescription(None) vocabulary_term_CYCLES_50.setLabel(None) vocabulary_term_CYCLES_50.setOrdinal(2) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_50) vocabulary_term_CYCLES_76 = tr.createNewVocabularyTerm('76') vocabulary_term_CYCLES_76.setDescription(None) vocabulary_term_CYCLES_76.setLabel(None) vocabulary_term_CYCLES_76.setOrdinal(3) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_76) vocabulary_term_CYCLES_101 = tr.createNewVocabularyTerm('101') vocabulary_term_CYCLES_101.setDescription(None) vocabulary_term_CYCLES_101.setLabel(None) vocabulary_term_CYCLES_101.setOrdinal(4) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_101) vocabulary_term_CYCLES_51 = tr.createNewVocabularyTerm('51') vocabulary_term_CYCLES_51.setDescription(None) vocabulary_term_CYCLES_51.setLabel(None) vocabulary_term_CYCLES_51.setOrdinal(5) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_51) vocabulary_term_CYCLES_58 = tr.createNewVocabularyTerm('58') vocabulary_term_CYCLES_58.setDescription(None) vocabulary_term_CYCLES_58.setLabel(None) vocabulary_term_CYCLES_58.setOrdinal(6) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_58) vocabulary_term_CYCLES_125 = tr.createNewVocabularyTerm('125') vocabulary_term_CYCLES_125.setDescription(None) vocabulary_term_CYCLES_125.setLabel(None) vocabulary_term_CYCLES_125.setOrdinal(7) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_125) vocabulary_term_CYCLES_151 = tr.createNewVocabularyTerm('151') vocabulary_term_CYCLES_151.setDescription(None) vocabulary_term_CYCLES_151.setLabel(None) vocabulary_term_CYCLES_151.setOrdinal(8) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_151) vocabulary_term_CYCLES_100 = tr.createNewVocabularyTerm('100') vocabulary_term_CYCLES_100.setDescription(None) vocabulary_term_CYCLES_100.setLabel(None) vocabulary_term_CYCLES_100.setOrdinal(9) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_100) vocabulary_term_CYCLES_108 = tr.createNewVocabularyTerm('108') vocabulary_term_CYCLES_108.setDescription(None) vocabulary_term_CYCLES_108.setLabel(None) vocabulary_term_CYCLES_108.setOrdinal(10) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_108) vocabulary_term_CYCLES_150 = tr.createNewVocabularyTerm('150') vocabulary_term_CYCLES_150.setDescription(None) vocabulary_term_CYCLES_150.setLabel(None) vocabulary_term_CYCLES_150.setOrdinal(11) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_150) vocabulary_term_CYCLES_49 = tr.createNewVocabularyTerm('49') vocabulary_term_CYCLES_49.setDescription(None) vocabulary_term_CYCLES_49.setLabel(None) vocabulary_term_CYCLES_49.setOrdinal(12) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_49) vocabulary_term_CYCLES_55 = tr.createNewVocabularyTerm('55') vocabulary_term_CYCLES_55.setDescription(None) vocabulary_term_CYCLES_55.setLabel(None) vocabulary_term_CYCLES_55.setOrdinal(13) vocabulary_CYCLES.addTerm(vocabulary_term_CYCLES_55) vocabulary_END_TYPE = tr.getOrCreateNewVocabulary('END_TYPE') vocabulary_END_TYPE.setDescription('Sequencing method') vocabulary_END_TYPE.setUrlTemplate(None) vocabulary_END_TYPE.setManagedInternally(False) vocabulary_END_TYPE.setInternalNamespace(False) vocabulary_END_TYPE.setChosenFromList(True) vocabulary_term_END_TYPE_SINGLE_READ = tr.createNewVocabularyTerm('SINGLE_READ') vocabulary_term_END_TYPE_SINGLE_READ.setDescription(None) vocabulary_term_END_TYPE_SINGLE_READ.setLabel(None) vocabulary_term_END_TYPE_SINGLE_READ.setOrdinal(1) vocabulary_END_TYPE.addTerm(vocabulary_term_END_TYPE_SINGLE_READ) vocabulary_term_END_TYPE_PAIRED_END = tr.createNewVocabularyTerm('PAIRED_END') vocabulary_term_END_TYPE_PAIRED_END.setDescription(None) vocabulary_term_END_TYPE_PAIRED_END.setLabel(None) vocabulary_term_END_TYPE_PAIRED_END.setOrdinal(2) vocabulary_END_TYPE.addTerm(vocabulary_term_END_TYPE_PAIRED_END) vocabulary_EXPERIMENT_DESIGN = tr.getOrCreateNewVocabulary('EXPERIMENT_DESIGN') vocabulary_EXPERIMENT_DESIGN.setDescription('General Intent') vocabulary_EXPERIMENT_DESIGN.setUrlTemplate(None) vocabulary_EXPERIMENT_DESIGN.setManagedInternally(False) vocabulary_EXPERIMENT_DESIGN.setInternalNamespace(False) vocabulary_EXPERIMENT_DESIGN.setChosenFromList(True) vocabulary_term_EXPERIMENT_DESIGN_BINDING_SITE_IDENTIFICATION = tr.createNewVocabularyTerm('BINDING_SITE_IDENTIFICATION') vocabulary_term_EXPERIMENT_DESIGN_BINDING_SITE_IDENTIFICATION.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_BINDING_SITE_IDENTIFICATION.setLabel('Binding Site Identification') vocabulary_term_EXPERIMENT_DESIGN_BINDING_SITE_IDENTIFICATION.setOrdinal(1) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_BINDING_SITE_IDENTIFICATION) vocabulary_term_EXPERIMENT_DESIGN_CHROMATIN_MARKS = tr.createNewVocabularyTerm('CHROMATIN_MARKS') vocabulary_term_EXPERIMENT_DESIGN_CHROMATIN_MARKS.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_CHROMATIN_MARKS.setLabel('Chromatin Marks') vocabulary_term_EXPERIMENT_DESIGN_CHROMATIN_MARKS.setOrdinal(2) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_CHROMATIN_MARKS) vocabulary_term_EXPERIMENT_DESIGN_COMPARATIVE_GENOMIC_HYBRIDIZATION = tr.createNewVocabularyTerm('COMPARATIVE_GENOMIC_HYBRIDIZATION') vocabulary_term_EXPERIMENT_DESIGN_COMPARATIVE_GENOMIC_HYBRIDIZATION.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_COMPARATIVE_GENOMIC_HYBRIDIZATION.setLabel('Comparative Genomic Hybridization') vocabulary_term_EXPERIMENT_DESIGN_COMPARATIVE_GENOMIC_HYBRIDIZATION.setOrdinal(3) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_COMPARATIVE_GENOMIC_HYBRIDIZATION) vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_EXPRESSION = tr.createNewVocabularyTerm('DIFFERENTIAL_EXPRESSION') vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_EXPRESSION.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_EXPRESSION.setLabel('Differential Expression') vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_EXPRESSION.setOrdinal(4) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_EXPRESSION) vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_SPLICING = tr.createNewVocabularyTerm('DIFFERENTIAL_SPLICING') vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_SPLICING.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_SPLICING.setLabel('Differential Splicing') vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_SPLICING.setOrdinal(5) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_DIFFERENTIAL_SPLICING) vocabulary_term_EXPERIMENT_DESIGN_EXPRESSION = tr.createNewVocabularyTerm('EXPRESSION') vocabulary_term_EXPERIMENT_DESIGN_EXPRESSION.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_EXPRESSION.setLabel('Expression') vocabulary_term_EXPERIMENT_DESIGN_EXPRESSION.setOrdinal(6) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_EXPRESSION) vocabulary_term_EXPERIMENT_DESIGN_SEQUENCE_ENRICHMENT = tr.createNewVocabularyTerm('SEQUENCE_ENRICHMENT') vocabulary_term_EXPERIMENT_DESIGN_SEQUENCE_ENRICHMENT.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_SEQUENCE_ENRICHMENT.setLabel('Sequence Enrichment') vocabulary_term_EXPERIMENT_DESIGN_SEQUENCE_ENRICHMENT.setOrdinal(7) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_SEQUENCE_ENRICHMENT) vocabulary_term_EXPERIMENT_DESIGN_TRANSCRIPT_IDENTIFICATION = tr.createNewVocabularyTerm('TRANSCRIPT_IDENTIFICATION') vocabulary_term_EXPERIMENT_DESIGN_TRANSCRIPT_IDENTIFICATION.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_TRANSCRIPT_IDENTIFICATION.setLabel('Transcript Identification') vocabulary_term_EXPERIMENT_DESIGN_TRANSCRIPT_IDENTIFICATION.setOrdinal(8) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_TRANSCRIPT_IDENTIFICATION) vocabulary_term_EXPERIMENT_DESIGN_OTHER = tr.createNewVocabularyTerm('OTHER') vocabulary_term_EXPERIMENT_DESIGN_OTHER.setDescription(None) vocabulary_term_EXPERIMENT_DESIGN_OTHER.setLabel('Other') vocabulary_term_EXPERIMENT_DESIGN_OTHER.setOrdinal(9) vocabulary_EXPERIMENT_DESIGN.addTerm(vocabulary_term_EXPERIMENT_DESIGN_OTHER) vocabulary_INDEX1 = tr.getOrCreateNewVocabulary('INDEX1') vocabulary_INDEX1.setDescription('Index 1 for Illumina Indexing') vocabulary_INDEX1.setUrlTemplate(None) vocabulary_INDEX1.setManagedInternally(False) vocabulary_INDEX1.setInternalNamespace(False) vocabulary_INDEX1.setChosenFromList(True) vocabulary_term_INDEX1_ATCACGA = tr.createNewVocabularyTerm('ATCACGA') vocabulary_term_INDEX1_ATCACGA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_ATCACGA.setLabel('Index1 ATCACGA') vocabulary_term_INDEX1_ATCACGA.setOrdinal(1) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATCACGA) vocabulary_term_INDEX1_CGATGTA = tr.createNewVocabularyTerm('CGATGTA') vocabulary_term_INDEX1_CGATGTA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_CGATGTA.setLabel('Index2 CGATGTA') vocabulary_term_INDEX1_CGATGTA.setOrdinal(2) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGATGTA) vocabulary_term_INDEX1_TTAGGCA = tr.createNewVocabularyTerm('TTAGGCA') vocabulary_term_INDEX1_TTAGGCA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_TTAGGCA.setLabel('Index3 TTAGGCA') vocabulary_term_INDEX1_TTAGGCA.setOrdinal(3) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TTAGGCA) vocabulary_term_INDEX1_TGACCAA = tr.createNewVocabularyTerm('TGACCAA') vocabulary_term_INDEX1_TGACCAA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_TGACCAA.setLabel('Index4 TGACCAA') vocabulary_term_INDEX1_TGACCAA.setOrdinal(4) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TGACCAA) vocabulary_term_INDEX1_ACAGTGA = tr.createNewVocabularyTerm('ACAGTGA') vocabulary_term_INDEX1_ACAGTGA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_ACAGTGA.setLabel('Index5 ACAGTGA') vocabulary_term_INDEX1_ACAGTGA.setOrdinal(5) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ACAGTGA) vocabulary_term_INDEX1_GCCAATA = tr.createNewVocabularyTerm('GCCAATA') vocabulary_term_INDEX1_GCCAATA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GCCAATA.setLabel('Index6 GCCAATA') vocabulary_term_INDEX1_GCCAATA.setOrdinal(6) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GCCAATA) vocabulary_term_INDEX1_CAGATCA = tr.createNewVocabularyTerm('CAGATCA') vocabulary_term_INDEX1_CAGATCA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_CAGATCA.setLabel('Index7 CAGATCA') vocabulary_term_INDEX1_CAGATCA.setOrdinal(7) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CAGATCA) vocabulary_term_INDEX1_ACTTGAA = tr.createNewVocabularyTerm('ACTTGAA') vocabulary_term_INDEX1_ACTTGAA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_ACTTGAA.setLabel('Index8 ACTTGAA') vocabulary_term_INDEX1_ACTTGAA.setOrdinal(8) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ACTTGAA) vocabulary_term_INDEX1_GATCAGA = tr.createNewVocabularyTerm('GATCAGA') vocabulary_term_INDEX1_GATCAGA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GATCAGA.setLabel('Index9 GATCAGA') vocabulary_term_INDEX1_GATCAGA.setOrdinal(9) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GATCAGA) vocabulary_term_INDEX1_TAGCTTA = tr.createNewVocabularyTerm('TAGCTTA') vocabulary_term_INDEX1_TAGCTTA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_TAGCTTA.setLabel('Index10 TAGCTTA') vocabulary_term_INDEX1_TAGCTTA.setOrdinal(10) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TAGCTTA) vocabulary_term_INDEX1_GGCTACA = tr.createNewVocabularyTerm('GGCTACA') vocabulary_term_INDEX1_GGCTACA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GGCTACA.setLabel('Index11 GGCTACA') vocabulary_term_INDEX1_GGCTACA.setOrdinal(11) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GGCTACA) vocabulary_term_INDEX1_CTTGTAA = tr.createNewVocabularyTerm('CTTGTAA') vocabulary_term_INDEX1_CTTGTAA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_CTTGTAA.setLabel('Index12 CTTGTAA') vocabulary_term_INDEX1_CTTGTAA.setOrdinal(12) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CTTGTAA) vocabulary_term_INDEX1_AGATACA = tr.createNewVocabularyTerm('AGATACA') vocabulary_term_INDEX1_AGATACA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_AGATACA.setLabel('Index13 AGATAC') vocabulary_term_INDEX1_AGATACA.setOrdinal(13) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AGATACA) vocabulary_term_INDEX1_AGTTCCG = tr.createNewVocabularyTerm('AGTTCCG') vocabulary_term_INDEX1_AGTTCCG.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_AGTTCCG.setLabel('Index14 AGTTCCG') vocabulary_term_INDEX1_AGTTCCG.setOrdinal(14) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AGTTCCG) vocabulary_term_INDEX1_ATGTCAG = tr.createNewVocabularyTerm('ATGTCAG') vocabulary_term_INDEX1_ATGTCAG.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_ATGTCAG.setLabel('Index15 ATGTCAG') vocabulary_term_INDEX1_ATGTCAG.setOrdinal(15) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATGTCAG) vocabulary_term_INDEX1_CCGTCCC = tr.createNewVocabularyTerm('CCGTCCC') vocabulary_term_INDEX1_CCGTCCC.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_CCGTCCC.setLabel('Index16 CCGTCCC') vocabulary_term_INDEX1_CCGTCCC.setOrdinal(16) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CCGTCCC) vocabulary_term_INDEX1_GTCCGCA = tr.createNewVocabularyTerm('GTCCGCA') vocabulary_term_INDEX1_GTCCGCA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GTCCGCA.setLabel('Index18 GTCCGCA') vocabulary_term_INDEX1_GTCCGCA.setOrdinal(17) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTCCGCA) vocabulary_term_INDEX1_GTGAAAC = tr.createNewVocabularyTerm('GTGAAAC') vocabulary_term_INDEX1_GTGAAAC.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GTGAAAC.setLabel('Index19 GTGAAAC') vocabulary_term_INDEX1_GTGAAAC.setOrdinal(18) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTGAAAC) vocabulary_term_INDEX1_GTGGCCT = tr.createNewVocabularyTerm('GTGGCCT') vocabulary_term_INDEX1_GTGGCCT.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GTGGCCT.setLabel('Index20 GTGGCCT') vocabulary_term_INDEX1_GTGGCCT.setOrdinal(19) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTGGCCT) vocabulary_term_INDEX1_GTTTCGG = tr.createNewVocabularyTerm('GTTTCGG') vocabulary_term_INDEX1_GTTTCGG.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GTTTCGG.setLabel('Index21 GTTTCGG') vocabulary_term_INDEX1_GTTTCGG.setOrdinal(20) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTTTCGG) vocabulary_term_INDEX1_CGTACGT = tr.createNewVocabularyTerm('CGTACGT') vocabulary_term_INDEX1_CGTACGT.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_CGTACGT.setLabel('Index22 CGTACGT') vocabulary_term_INDEX1_CGTACGT.setOrdinal(21) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGTACGT) vocabulary_term_INDEX1_GAGTGGA = tr.createNewVocabularyTerm('GAGTGGA') vocabulary_term_INDEX1_GAGTGGA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_GAGTGGA.setLabel('Index23 GAGTGGA') vocabulary_term_INDEX1_GAGTGGA.setOrdinal(22) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GAGTGGA) vocabulary_term_INDEX1_ACTGATA = tr.createNewVocabularyTerm('ACTGATA') vocabulary_term_INDEX1_ACTGATA.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_ACTGATA.setLabel('Index25 ACTGATA') vocabulary_term_INDEX1_ACTGATA.setOrdinal(23) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ACTGATA) vocabulary_term_INDEX1_ATTCCTT = tr.createNewVocabularyTerm('ATTCCTT') vocabulary_term_INDEX1_ATTCCTT.setDescription('Illumina, Nextera or Scriptseq') vocabulary_term_INDEX1_ATTCCTT.setLabel('Index27 ATTCCTT') vocabulary_term_INDEX1_ATTCCTT.setOrdinal(24) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATTCCTT) vocabulary_term_INDEX1_TAAGGCGA = tr.createNewVocabularyTerm('TAAGGCGA') vocabulary_term_INDEX1_TAAGGCGA.setDescription('Nextera DNA') vocabulary_term_INDEX1_TAAGGCGA.setLabel('Index1 (i7) N701 TAAGGCGA') vocabulary_term_INDEX1_TAAGGCGA.setOrdinal(25) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TAAGGCGA) vocabulary_term_INDEX1_CGTACTAG = tr.createNewVocabularyTerm('CGTACTAG') vocabulary_term_INDEX1_CGTACTAG.setDescription('Nextera DNA') vocabulary_term_INDEX1_CGTACTAG.setLabel('Index1 (i7) N702 CGTACTAG') vocabulary_term_INDEX1_CGTACTAG.setOrdinal(26) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGTACTAG) vocabulary_term_INDEX1_AGGCAGAA = tr.createNewVocabularyTerm('AGGCAGAA') vocabulary_term_INDEX1_AGGCAGAA.setDescription('Nextera DNA') vocabulary_term_INDEX1_AGGCAGAA.setLabel('Index1 (i7) N703 AGGCAGAA') vocabulary_term_INDEX1_AGGCAGAA.setOrdinal(27) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AGGCAGAA) vocabulary_term_INDEX1_TCCTGAGC = tr.createNewVocabularyTerm('TCCTGAGC') vocabulary_term_INDEX1_TCCTGAGC.setDescription('Nextera DNA') vocabulary_term_INDEX1_TCCTGAGC.setLabel('Index1 (i7) N704 TCCTGAGC') vocabulary_term_INDEX1_TCCTGAGC.setOrdinal(28) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCCTGAGC) vocabulary_term_INDEX1_GGACTCCT = tr.createNewVocabularyTerm('GGACTCCT') vocabulary_term_INDEX1_GGACTCCT.setDescription('Nextera DNA') vocabulary_term_INDEX1_GGACTCCT.setLabel('Index1 (i7) N705 GGACTCCT') vocabulary_term_INDEX1_GGACTCCT.setOrdinal(29) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GGACTCCT) vocabulary_term_INDEX1_TAGGCATG = tr.createNewVocabularyTerm('TAGGCATG') vocabulary_term_INDEX1_TAGGCATG.setDescription('Nextera DNA') vocabulary_term_INDEX1_TAGGCATG.setLabel('Index1 (i7) N706 TAGGCATG') vocabulary_term_INDEX1_TAGGCATG.setOrdinal(30) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TAGGCATG) vocabulary_term_INDEX1_CTCTCTAC = tr.createNewVocabularyTerm('CTCTCTAC') vocabulary_term_INDEX1_CTCTCTAC.setDescription('Nextera DNA') vocabulary_term_INDEX1_CTCTCTAC.setLabel('Index1 (i7) N707 CTCTCTAC') vocabulary_term_INDEX1_CTCTCTAC.setOrdinal(31) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CTCTCTAC) vocabulary_term_INDEX1_CAGAGAGG = tr.createNewVocabularyTerm('CAGAGAGG') vocabulary_term_INDEX1_CAGAGAGG.setDescription('Nextera DNA') vocabulary_term_INDEX1_CAGAGAGG.setLabel('Index1 (i7) N708 CAGAGAGG') vocabulary_term_INDEX1_CAGAGAGG.setOrdinal(32) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CAGAGAGG) vocabulary_term_INDEX1_GCTACGCT = tr.createNewVocabularyTerm('GCTACGCT') vocabulary_term_INDEX1_GCTACGCT.setDescription('Nextera DNA') vocabulary_term_INDEX1_GCTACGCT.setLabel('Index1 (i7) N709 GCTACGCT') vocabulary_term_INDEX1_GCTACGCT.setOrdinal(33) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GCTACGCT) vocabulary_term_INDEX1_CGAGGCTG = tr.createNewVocabularyTerm('CGAGGCTG') vocabulary_term_INDEX1_CGAGGCTG.setDescription('Nextera DNA') vocabulary_term_INDEX1_CGAGGCTG.setLabel('Index1 (i7) N710 CGAGGCTG') vocabulary_term_INDEX1_CGAGGCTG.setOrdinal(34) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGAGGCTG) vocabulary_term_INDEX1_AAGAGGCA = tr.createNewVocabularyTerm('AAGAGGCA') vocabulary_term_INDEX1_AAGAGGCA.setDescription('Nextera DNA') vocabulary_term_INDEX1_AAGAGGCA.setLabel('Index1 (i7) N711 AAGAGGCA') vocabulary_term_INDEX1_AAGAGGCA.setOrdinal(35) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AAGAGGCA) vocabulary_term_INDEX1_GTAGAGGA = tr.createNewVocabularyTerm('GTAGAGGA') vocabulary_term_INDEX1_GTAGAGGA.setDescription('Nextera DNA') vocabulary_term_INDEX1_GTAGAGGA.setLabel('Index1 (i7) N712 GTAGAGGA') vocabulary_term_INDEX1_GTAGAGGA.setOrdinal(36) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTAGAGGA) vocabulary_term_INDEX1_AAGACTA = tr.createNewVocabularyTerm('AAGACTA') vocabulary_term_INDEX1_AAGACTA.setDescription(None) vocabulary_term_INDEX1_AAGACTA.setLabel('02 AAGACT') vocabulary_term_INDEX1_AAGACTA.setOrdinal(37) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AAGACTA) vocabulary_term_INDEX1_ACTTCAA = tr.createNewVocabularyTerm('ACTTCAA') vocabulary_term_INDEX1_ACTTCAA.setDescription(None) vocabulary_term_INDEX1_ACTTCAA.setLabel('10 ACTTCA') vocabulary_term_INDEX1_ACTTCAA.setOrdinal(38) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ACTTCAA) vocabulary_term_INDEX1_AGGTTGA = tr.createNewVocabularyTerm('AGGTTGA') vocabulary_term_INDEX1_AGGTTGA.setDescription(None) vocabulary_term_INDEX1_AGGTTGA.setLabel('17 AGGTTG') vocabulary_term_INDEX1_AGGTTGA.setOrdinal(39) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AGGTTGA) vocabulary_term_INDEX1_TTCGTCA = tr.createNewVocabularyTerm('TTCGTCA') vocabulary_term_INDEX1_TTCGTCA.setDescription(None) vocabulary_term_INDEX1_TTCGTCA.setLabel('17 TTCGTCA') vocabulary_term_INDEX1_TTCGTCA.setOrdinal(40) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TTCGTCA) vocabulary_term_INDEX1_AGCATAA = tr.createNewVocabularyTerm('AGCATAA') vocabulary_term_INDEX1_AGCATAA.setDescription(None) vocabulary_term_INDEX1_AGCATAA.setLabel('20 AGCATAA') vocabulary_term_INDEX1_AGCATAA.setOrdinal(41) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AGCATAA) vocabulary_term_INDEX1_ATACGCA = tr.createNewVocabularyTerm('ATACGCA') vocabulary_term_INDEX1_ATACGCA.setDescription(None) vocabulary_term_INDEX1_ATACGCA.setLabel('20 ATACGC') vocabulary_term_INDEX1_ATACGCA.setOrdinal(42) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATACGCA) vocabulary_term_INDEX1_CAGATGA = tr.createNewVocabularyTerm('CAGATGA') vocabulary_term_INDEX1_CAGATGA.setDescription(None) vocabulary_term_INDEX1_CAGATGA.setLabel('28 CAGATG') vocabulary_term_INDEX1_CAGATGA.setOrdinal(43) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CAGATGA) vocabulary_term_INDEX1_CCGAATA = tr.createNewVocabularyTerm('CCGAATA') vocabulary_term_INDEX1_CCGAATA.setDescription(None) vocabulary_term_INDEX1_CCGAATA.setLabel('34 CCGAAT') vocabulary_term_INDEX1_CCGAATA.setOrdinal(44) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CCGAATA) vocabulary_term_INDEX1_CGCTCGA = tr.createNewVocabularyTerm('CGCTCGA') vocabulary_term_INDEX1_CGCTCGA.setDescription(None) vocabulary_term_INDEX1_CGCTCGA.setLabel('43 CGCTCG') vocabulary_term_INDEX1_CGCTCGA.setOrdinal(45) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGCTCGA) vocabulary_term_INDEX1_CGTATTA = tr.createNewVocabularyTerm('CGTATTA') vocabulary_term_INDEX1_CGTATTA.setDescription(None) vocabulary_term_INDEX1_CGTATTA.setLabel('45 CGTATT') vocabulary_term_INDEX1_CGTATTA.setOrdinal(46) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGTATTA) vocabulary_term_INDEX1_CCATGAA = tr.createNewVocabularyTerm('CCATGAA') vocabulary_term_INDEX1_CCATGAA.setDescription(None) vocabulary_term_INDEX1_CCATGAA.setLabel('50 CCATGAA') vocabulary_term_INDEX1_CCATGAA.setOrdinal(47) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CCATGAA) vocabulary_term_INDEX1_CTGACCA = tr.createNewVocabularyTerm('CTGACCA') vocabulary_term_INDEX1_CTGACCA.setDescription(None) vocabulary_term_INDEX1_CTGACCA.setLabel('50 CTGACC') vocabulary_term_INDEX1_CTGACCA.setOrdinal(48) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CTGACCA) vocabulary_term_INDEX1_GAAGCCA = tr.createNewVocabularyTerm('GAAGCCA') vocabulary_term_INDEX1_GAAGCCA.setDescription(None) vocabulary_term_INDEX1_GAAGCCA.setLabel('52 GAAGCC') vocabulary_term_INDEX1_GAAGCCA.setOrdinal(49) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GAAGCCA) vocabulary_term_INDEX1_GCTGAAA = tr.createNewVocabularyTerm('GCTGAAA') vocabulary_term_INDEX1_GCTGAAA.setDescription(None) vocabulary_term_INDEX1_GCTGAAA.setLabel('59 GCTGAA') vocabulary_term_INDEX1_GCTGAAA.setOrdinal(50) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GCTGAAA) vocabulary_term_INDEX1_GTCGCGA = tr.createNewVocabularyTerm('GTCGCGA') vocabulary_term_INDEX1_GTCGCGA.setDescription(None) vocabulary_term_INDEX1_GTCGCGA.setLabel('64 GTCGCG') vocabulary_term_INDEX1_GTCGCGA.setOrdinal(51) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTCGCGA) vocabulary_term_INDEX1_TAAGATA = tr.createNewVocabularyTerm('TAAGATA') vocabulary_term_INDEX1_TAAGATA.setDescription(None) vocabulary_term_INDEX1_TAAGATA.setLabel('65 TAAGAT') vocabulary_term_INDEX1_TAAGATA.setOrdinal(52) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TAAGATA) vocabulary_term_INDEX1_GCGCTGA = tr.createNewVocabularyTerm('GCGCTGA') vocabulary_term_INDEX1_GCGCTGA.setDescription(None) vocabulary_term_INDEX1_GCGCTGA.setLabel('66 GCGCTGA') vocabulary_term_INDEX1_GCGCTGA.setOrdinal(53) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GCGCTGA) vocabulary_term_INDEX1_TATCGTA = tr.createNewVocabularyTerm('TATCGTA') vocabulary_term_INDEX1_TATCGTA.setDescription(None) vocabulary_term_INDEX1_TATCGTA.setLabel('66 TATCGT') vocabulary_term_INDEX1_TATCGTA.setOrdinal(54) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TATCGTA) vocabulary_term_INDEX1_TCCTACA = tr.createNewVocabularyTerm('TCCTACA') vocabulary_term_INDEX1_TCCTACA.setDescription(None) vocabulary_term_INDEX1_TCCTACA.setLabel('68 TCCTAC') vocabulary_term_INDEX1_TCCTACA.setOrdinal(55) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCCTACA) vocabulary_term_INDEX1_TCTATAA = tr.createNewVocabularyTerm('TCTATAA') vocabulary_term_INDEX1_TCTATAA.setDescription(None) vocabulary_term_INDEX1_TCTATAA.setLabel('70 TCTATA') vocabulary_term_INDEX1_TCTATAA.setOrdinal(56) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCTATAA) vocabulary_term_INDEX1_TTACTTA = tr.createNewVocabularyTerm('TTACTTA') vocabulary_term_INDEX1_TTACTTA.setDescription(None) vocabulary_term_INDEX1_TTACTTA.setLabel('74 TTACTT') vocabulary_term_INDEX1_TTACTTA.setOrdinal(57) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TTACTTA) vocabulary_term_INDEX1_TTCCGAA = tr.createNewVocabularyTerm('TTCCGAA') vocabulary_term_INDEX1_TTCCGAA.setDescription(None) vocabulary_term_INDEX1_TTCCGAA.setLabel('75 TTCCGA') vocabulary_term_INDEX1_TTCCGAA.setOrdinal(58) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TTCCGAA) vocabulary_term_INDEX1_ATGTCAA = tr.createNewVocabularyTerm('ATGTCAA') vocabulary_term_INDEX1_ATGTCAA.setDescription(None) vocabulary_term_INDEX1_ATGTCAA.setLabel('DNA Adapter 15') vocabulary_term_INDEX1_ATGTCAA.setOrdinal(59) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATGTCAA) vocabulary_term_INDEX1_CCGTCCA = tr.createNewVocabularyTerm('CCGTCCA') vocabulary_term_INDEX1_CCGTCCA.setDescription(None) vocabulary_term_INDEX1_CCGTCCA.setLabel('DNA Adapter 16') vocabulary_term_INDEX1_CCGTCCA.setOrdinal(60) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CCGTCCA) vocabulary_term_INDEX1_GTAGAGA = tr.createNewVocabularyTerm('GTAGAGA') vocabulary_term_INDEX1_GTAGAGA.setDescription(None) vocabulary_term_INDEX1_GTAGAGA.setLabel('DNA Adapter 17') vocabulary_term_INDEX1_GTAGAGA.setOrdinal(61) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTAGAGA) vocabulary_term_INDEX1_GTGAAAA = tr.createNewVocabularyTerm('GTGAAAA') vocabulary_term_INDEX1_GTGAAAA.setDescription(None) vocabulary_term_INDEX1_GTGAAAA.setLabel('DNA Adapter 19') vocabulary_term_INDEX1_GTGAAAA.setOrdinal(62) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTGAAAA) vocabulary_term_INDEX1_GTGGCCA = tr.createNewVocabularyTerm('GTGGCCA') vocabulary_term_INDEX1_GTGGCCA.setDescription(None) vocabulary_term_INDEX1_GTGGCCA.setLabel('DNA Adapter 20') vocabulary_term_INDEX1_GTGGCCA.setOrdinal(63) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTGGCCA) vocabulary_term_INDEX1_GTTTCGA = tr.createNewVocabularyTerm('GTTTCGA') vocabulary_term_INDEX1_GTTTCGA.setDescription(None) vocabulary_term_INDEX1_GTTTCGA.setLabel('DNA Adapter 21') vocabulary_term_INDEX1_GTTTCGA.setOrdinal(64) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GTTTCGA) vocabulary_term_INDEX1_CGTACGA = tr.createNewVocabularyTerm('CGTACGA') vocabulary_term_INDEX1_CGTACGA.setDescription(None) vocabulary_term_INDEX1_CGTACGA.setLabel('DNA Adapter 22') vocabulary_term_INDEX1_CGTACGA.setOrdinal(65) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGTACGA) vocabulary_term_INDEX1_GGTAGCA = tr.createNewVocabularyTerm('GGTAGCA') vocabulary_term_INDEX1_GGTAGCA.setDescription(None) vocabulary_term_INDEX1_GGTAGCA.setLabel('DNA Adapter 24') vocabulary_term_INDEX1_GGTAGCA.setOrdinal(66) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GGTAGCA) vocabulary_term_INDEX1_ATGAGCA = tr.createNewVocabularyTerm('ATGAGCA') vocabulary_term_INDEX1_ATGAGCA.setDescription(None) vocabulary_term_INDEX1_ATGAGCA.setLabel('DNA Adapter 26') vocabulary_term_INDEX1_ATGAGCA.setOrdinal(67) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATGAGCA) vocabulary_term_INDEX1_ATTCCTA = tr.createNewVocabularyTerm('ATTCCTA') vocabulary_term_INDEX1_ATTCCTA.setDescription(None) vocabulary_term_INDEX1_ATTCCTA.setLabel('DNA Adapter 27') vocabulary_term_INDEX1_ATTCCTA.setOrdinal(68) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_ATTCCTA) vocabulary_term_INDEX1_CAAAAGA = tr.createNewVocabularyTerm('CAAAAGA') vocabulary_term_INDEX1_CAAAAGA.setDescription(None) vocabulary_term_INDEX1_CAAAAGA.setLabel('DNA Adapter 28') vocabulary_term_INDEX1_CAAAAGA.setOrdinal(69) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CAAAAGA) vocabulary_term_INDEX1_CAACTAA = tr.createNewVocabularyTerm('CAACTAA') vocabulary_term_INDEX1_CAACTAA.setDescription(None) vocabulary_term_INDEX1_CAACTAA.setLabel('DNA Adapter 29') vocabulary_term_INDEX1_CAACTAA.setOrdinal(70) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CAACTAA) vocabulary_term_INDEX1_CACCGGA = tr.createNewVocabularyTerm('CACCGGA') vocabulary_term_INDEX1_CACCGGA.setDescription(None) vocabulary_term_INDEX1_CACCGGA.setLabel('DNA Adapter 30') vocabulary_term_INDEX1_CACCGGA.setOrdinal(71) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CACCGGA) vocabulary_term_INDEX1_CACGATA = tr.createNewVocabularyTerm('CACGATA') vocabulary_term_INDEX1_CACGATA.setDescription(None) vocabulary_term_INDEX1_CACGATA.setLabel('DNA Adapter 31') vocabulary_term_INDEX1_CACGATA.setOrdinal(72) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CACGATA) vocabulary_term_INDEX1_CACTCAA = tr.createNewVocabularyTerm('CACTCAA') vocabulary_term_INDEX1_CACTCAA.setDescription(None) vocabulary_term_INDEX1_CACTCAA.setLabel('DNA Adapter 32') vocabulary_term_INDEX1_CACTCAA.setOrdinal(73) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CACTCAA) vocabulary_term_INDEX1_CAGGCGA = tr.createNewVocabularyTerm('CAGGCGA') vocabulary_term_INDEX1_CAGGCGA.setDescription(None) vocabulary_term_INDEX1_CAGGCGA.setLabel('DNA Adapter 33') vocabulary_term_INDEX1_CAGGCGA.setOrdinal(74) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CAGGCGA) vocabulary_term_INDEX1_CATGGCA = tr.createNewVocabularyTerm('CATGGCA') vocabulary_term_INDEX1_CATGGCA.setDescription(None) vocabulary_term_INDEX1_CATGGCA.setLabel('DNA Adapter 34') vocabulary_term_INDEX1_CATGGCA.setOrdinal(75) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CATGGCA) vocabulary_term_INDEX1_CATTTTA = tr.createNewVocabularyTerm('CATTTTA') vocabulary_term_INDEX1_CATTTTA.setDescription(None) vocabulary_term_INDEX1_CATTTTA.setLabel('DNA Adapter 35') vocabulary_term_INDEX1_CATTTTA.setOrdinal(76) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CATTTTA) vocabulary_term_INDEX1_CCAACAA = tr.createNewVocabularyTerm('CCAACAA') vocabulary_term_INDEX1_CCAACAA.setDescription(None) vocabulary_term_INDEX1_CCAACAA.setLabel('DNA Adapter 36') vocabulary_term_INDEX1_CCAACAA.setOrdinal(77) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CCAACAA) vocabulary_term_INDEX1_CGGAATA = tr.createNewVocabularyTerm('CGGAATA') vocabulary_term_INDEX1_CGGAATA.setDescription(None) vocabulary_term_INDEX1_CGGAATA.setLabel('DNA Adapter 37') vocabulary_term_INDEX1_CGGAATA.setOrdinal(78) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CGGAATA) vocabulary_term_INDEX1_CTAGCTA = tr.createNewVocabularyTerm('CTAGCTA') vocabulary_term_INDEX1_CTAGCTA.setDescription(None) vocabulary_term_INDEX1_CTAGCTA.setLabel('DNA Adapter 38') vocabulary_term_INDEX1_CTAGCTA.setOrdinal(79) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CTAGCTA) vocabulary_term_INDEX1_CTATACA = tr.createNewVocabularyTerm('CTATACA') vocabulary_term_INDEX1_CTATACA.setDescription(None) vocabulary_term_INDEX1_CTATACA.setLabel('DNA Adapter 39') vocabulary_term_INDEX1_CTATACA.setOrdinal(80) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CTATACA) vocabulary_term_INDEX1_CTCAGAA = tr.createNewVocabularyTerm('CTCAGAA') vocabulary_term_INDEX1_CTCAGAA.setDescription(None) vocabulary_term_INDEX1_CTCAGAA.setLabel('DNA Adapter 40') vocabulary_term_INDEX1_CTCAGAA.setOrdinal(81) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_CTCAGAA) vocabulary_term_INDEX1_GACGACA = tr.createNewVocabularyTerm('GACGACA') vocabulary_term_INDEX1_GACGACA.setDescription(None) vocabulary_term_INDEX1_GACGACA.setLabel('DNA Adapter 41') vocabulary_term_INDEX1_GACGACA.setOrdinal(82) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_GACGACA) vocabulary_term_INDEX1_TAATCGA = tr.createNewVocabularyTerm('TAATCGA') vocabulary_term_INDEX1_TAATCGA.setDescription(None) vocabulary_term_INDEX1_TAATCGA.setLabel('DNA Adapter 42') vocabulary_term_INDEX1_TAATCGA.setOrdinal(83) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TAATCGA) vocabulary_term_INDEX1_TACAGCA = tr.createNewVocabularyTerm('TACAGCA') vocabulary_term_INDEX1_TACAGCA.setDescription(None) vocabulary_term_INDEX1_TACAGCA.setLabel('DNA Adapter 43') vocabulary_term_INDEX1_TACAGCA.setOrdinal(84) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TACAGCA) vocabulary_term_INDEX1_TATAATA = tr.createNewVocabularyTerm('TATAATA') vocabulary_term_INDEX1_TATAATA.setDescription(None) vocabulary_term_INDEX1_TATAATA.setLabel('DNA Adapter 44') vocabulary_term_INDEX1_TATAATA.setOrdinal(85) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TATAATA) vocabulary_term_INDEX1_TCATTCA = tr.createNewVocabularyTerm('TCATTCA') vocabulary_term_INDEX1_TCATTCA.setDescription(None) vocabulary_term_INDEX1_TCATTCA.setLabel('DNA Adapter 45') vocabulary_term_INDEX1_TCATTCA.setOrdinal(86) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCATTCA) vocabulary_term_INDEX1_TCCCGAA = tr.createNewVocabularyTerm('TCCCGAA') vocabulary_term_INDEX1_TCCCGAA.setDescription(None) vocabulary_term_INDEX1_TCCCGAA.setLabel('DNA Adapter 46') vocabulary_term_INDEX1_TCCCGAA.setOrdinal(87) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCCCGAA) vocabulary_term_INDEX1_TCGAAGA = tr.createNewVocabularyTerm('TCGAAGA') vocabulary_term_INDEX1_TCGAAGA.setDescription(None) vocabulary_term_INDEX1_TCGAAGA.setLabel('DNA Adapter 47') vocabulary_term_INDEX1_TCGAAGA.setOrdinal(88) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCGAAGA) vocabulary_term_INDEX1_TCGGCAA = tr.createNewVocabularyTerm('TCGGCAA') vocabulary_term_INDEX1_TCGGCAA.setDescription(None) vocabulary_term_INDEX1_TCGGCAA.setLabel('DNA Adapter 48') vocabulary_term_INDEX1_TCGGCAA.setOrdinal(89) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_TCGGCAA) vocabulary_term_INDEX1_AGTCAAC = tr.createNewVocabularyTerm('AGTCAAC') vocabulary_term_INDEX1_AGTCAAC.setDescription(None) vocabulary_term_INDEX1_AGTCAAC.setLabel('Index13 AGTCAAC') vocabulary_term_INDEX1_AGTCAAC.setOrdinal(90) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AGTCAAC) vocabulary_term_INDEX1_AATGCGA = tr.createNewVocabularyTerm('AATGCGA') vocabulary_term_INDEX1_AATGCGA.setDescription(None) vocabulary_term_INDEX1_AATGCGA.setLabel('Lib AATGCGA') vocabulary_term_INDEX1_AATGCGA.setOrdinal(91) vocabulary_INDEX1.addTerm(vocabulary_term_INDEX1_AATGCGA) vocabulary_INDEX2 = tr.getOrCreateNewVocabulary('INDEX2') vocabulary_INDEX2.setDescription('Index 2 for Illumina Dual Indexing') vocabulary_INDEX2.setUrlTemplate(None) vocabulary_INDEX2.setManagedInternally(False) vocabulary_INDEX2.setInternalNamespace(False) vocabulary_INDEX2.setChosenFromList(True) vocabulary_term_INDEX2_TAGATCGC = tr.createNewVocabularyTerm('TAGATCGC') vocabulary_term_INDEX2_TAGATCGC.setDescription('Nextera DNA') vocabulary_term_INDEX2_TAGATCGC.setLabel('Index2 (i5) N501 TAGATCGC') vocabulary_term_INDEX2_TAGATCGC.setOrdinal(1) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_TAGATCGC) vocabulary_term_INDEX2_CTCTCTAT = tr.createNewVocabularyTerm('CTCTCTAT') vocabulary_term_INDEX2_CTCTCTAT.setDescription('Nextera DNA') vocabulary_term_INDEX2_CTCTCTAT.setLabel('Index2 (i5) N502 CTCTCTAT') vocabulary_term_INDEX2_CTCTCTAT.setOrdinal(2) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_CTCTCTAT) vocabulary_term_INDEX2_TATCCTCT = tr.createNewVocabularyTerm('TATCCTCT') vocabulary_term_INDEX2_TATCCTCT.setDescription('Nextera DNA') vocabulary_term_INDEX2_TATCCTCT.setLabel('Index2 (i5) N503 TATCCTCT') vocabulary_term_INDEX2_TATCCTCT.setOrdinal(3) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_TATCCTCT) vocabulary_term_INDEX2_AGAGTAGA = tr.createNewVocabularyTerm('AGAGTAGA') vocabulary_term_INDEX2_AGAGTAGA.setDescription('Nextera DNA') vocabulary_term_INDEX2_AGAGTAGA.setLabel('Index2 (i5) N504 AGAGTAGA') vocabulary_term_INDEX2_AGAGTAGA.setOrdinal(4) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_AGAGTAGA) vocabulary_term_INDEX2_GTAAGGAG = tr.createNewVocabularyTerm('GTAAGGAG') vocabulary_term_INDEX2_GTAAGGAG.setDescription('Nextera DNA') vocabulary_term_INDEX2_GTAAGGAG.setLabel('Index2 (i5) N505 GTAAGGAG') vocabulary_term_INDEX2_GTAAGGAG.setOrdinal(5) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_GTAAGGAG) vocabulary_term_INDEX2_ACTGCATA = tr.createNewVocabularyTerm('ACTGCATA') vocabulary_term_INDEX2_ACTGCATA.setDescription('Nextera DNA') vocabulary_term_INDEX2_ACTGCATA.setLabel('Index2 (i5) N506 ACTGCATA') vocabulary_term_INDEX2_ACTGCATA.setOrdinal(6) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_ACTGCATA) vocabulary_term_INDEX2_AAGGAGTA = tr.createNewVocabularyTerm('AAGGAGTA') vocabulary_term_INDEX2_AAGGAGTA.setDescription('Nextera DNA') vocabulary_term_INDEX2_AAGGAGTA.setLabel('Index2 (i5) N507 AAGGAGTA') vocabulary_term_INDEX2_AAGGAGTA.setOrdinal(7) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_AAGGAGTA) vocabulary_term_INDEX2_CTAAGCCT = tr.createNewVocabularyTerm('CTAAGCCT') vocabulary_term_INDEX2_CTAAGCCT.setDescription('Nextera DNA') vocabulary_term_INDEX2_CTAAGCCT.setLabel('Index2 (i5) N508 CTAAGCCT') vocabulary_term_INDEX2_CTAAGCCT.setOrdinal(8) vocabulary_INDEX2.addTerm(vocabulary_term_INDEX2_CTAAGCCT) vocabulary_KIT = tr.getOrCreateNewVocabulary('KIT') vocabulary_KIT.setDescription('Illumina Kit used for preparation') vocabulary_KIT.setUrlTemplate(None) vocabulary_KIT.setManagedInternally(False) vocabulary_KIT.setInternalNamespace(False) vocabulary_KIT.setChosenFromList(True) vocabulary_term_KIT_CHIP_SEQ_SAMPLE_PREP = tr.createNewVocabularyTerm('CHIP_SEQ_SAMPLE_PREP') vocabulary_term_KIT_CHIP_SEQ_SAMPLE_PREP.setDescription(None) vocabulary_term_KIT_CHIP_SEQ_SAMPLE_PREP.setLabel('ChIP-Seq Sample Preparation Kit') vocabulary_term_KIT_CHIP_SEQ_SAMPLE_PREP.setOrdinal(1) vocabulary_KIT.addTerm(vocabulary_term_KIT_CHIP_SEQ_SAMPLE_PREP) vocabulary_term_KIT_NEBNEXT_DNA_SAMPLE_PREP_MASTER_MIX_SET1 = tr.createNewVocabularyTerm('NEBNEXT_DNA_SAMPLE_PREP_MASTER_MIX_SET1') vocabulary_term_KIT_NEBNEXT_DNA_SAMPLE_PREP_MASTER_MIX_SET1.setDescription(None) vocabulary_term_KIT_NEBNEXT_DNA_SAMPLE_PREP_MASTER_MIX_SET1.setLabel('NEB Genomic DNA Sample Preparation Kit') vocabulary_term_KIT_NEBNEXT_DNA_SAMPLE_PREP_MASTER_MIX_SET1.setOrdinal(2) vocabulary_KIT.addTerm(vocabulary_term_KIT_NEBNEXT_DNA_SAMPLE_PREP_MASTER_MIX_SET1) vocabulary_term_KIT_GENOMICDNA_SAMPLE_PREP = tr.createNewVocabularyTerm('GENOMICDNA_SAMPLE_PREP') vocabulary_term_KIT_GENOMICDNA_SAMPLE_PREP.setDescription(None) vocabulary_term_KIT_GENOMICDNA_SAMPLE_PREP.setLabel('Illumina Genomic DNA Sample Preparation Kit') vocabulary_term_KIT_GENOMICDNA_SAMPLE_PREP.setOrdinal(3) vocabulary_KIT.addTerm(vocabulary_term_KIT_GENOMICDNA_SAMPLE_PREP) vocabulary_term_KIT_PAIRED_END_DNA_SAMPLE_PREP = tr.createNewVocabularyTerm('PAIRED_END_DNA_SAMPLE_PREP') vocabulary_term_KIT_PAIRED_END_DNA_SAMPLE_PREP.setDescription(None) vocabulary_term_KIT_PAIRED_END_DNA_SAMPLE_PREP.setLabel('Paired End DNA Sample Prep Oligo Kit') vocabulary_term_KIT_PAIRED_END_DNA_SAMPLE_PREP.setOrdinal(4) vocabulary_KIT.addTerm(vocabulary_term_KIT_PAIRED_END_DNA_SAMPLE_PREP) vocabulary_term_KIT_MRNA_SEQ_SAMPLE_PREP = tr.createNewVocabularyTerm('MRNA_SEQ_SAMPLE_PREP') vocabulary_term_KIT_MRNA_SEQ_SAMPLE_PREP.setDescription(None) vocabulary_term_KIT_MRNA_SEQ_SAMPLE_PREP.setLabel('mRNA-Seq Sample Preparation Kit') vocabulary_term_KIT_MRNA_SEQ_SAMPLE_PREP.setOrdinal(5) vocabulary_KIT.addTerm(vocabulary_term_KIT_MRNA_SEQ_SAMPLE_PREP) vocabulary_term_KIT_RIBOZERO_SCRIPTSEQ_MRNASEQ_KIT = tr.createNewVocabularyTerm('RIBOZERO_SCRIPTSEQ_MRNA-SEQ_KIT') vocabulary_term_KIT_RIBOZERO_SCRIPTSEQ_MRNASEQ_KIT.setDescription(None) vocabulary_term_KIT_RIBOZERO_SCRIPTSEQ_MRNASEQ_KIT.setLabel('RiboZero ScriptSeq mRNA-Seq_Epicentre-kit') vocabulary_term_KIT_RIBOZERO_SCRIPTSEQ_MRNASEQ_KIT.setOrdinal(6) vocabulary_KIT.addTerm(vocabulary_term_KIT_RIBOZERO_SCRIPTSEQ_MRNASEQ_KIT) vocabulary_term_KIT_POLYA_SCRIPTSEQ_MRNASEQ_KIT = tr.createNewVocabularyTerm('POLYA_SCRIPTSEQ_MRNA-SEQ_KIT') vocabulary_term_KIT_POLYA_SCRIPTSEQ_MRNASEQ_KIT.setDescription(None) vocabulary_term_KIT_POLYA_SCRIPTSEQ_MRNASEQ_KIT.setLabel('PolyA(Beads) ScriptSeq mRNA-Seq_Epicentre-kit') vocabulary_term_KIT_POLYA_SCRIPTSEQ_MRNASEQ_KIT.setOrdinal(7) vocabulary_KIT.addTerm(vocabulary_term_KIT_POLYA_SCRIPTSEQ_MRNASEQ_KIT) vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KITS = tr.createNewVocabularyTerm('NEXTERA_DNA_SAMPLE_PREP_KITS') vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KITS.setDescription(None) vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KITS.setLabel('Nextera Genomic DNA Sample Preparation Kit BufferLMW(Epicentre)') vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KITS.setOrdinal(8) vocabulary_KIT.addTerm(vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KITS) vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KIT_BUFFER_HMW = tr.createNewVocabularyTerm('NEXTERA_DNA_SAMPLE_PREP_KIT_BUFFER_HMW') vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KIT_BUFFER_HMW.setDescription(None) vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KIT_BUFFER_HMW.setLabel('Nextera Genomic DNA Sample Preparation Kit BufferHMW(Epicentre)') vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KIT_BUFFER_HMW.setOrdinal(9) vocabulary_KIT.addTerm(vocabulary_term_KIT_NEXTERA_DNA_SAMPLE_PREP_KIT_BUFFER_HMW) vocabulary_term_KIT_AGILENT_SURESELECT_ENRICHMENTSYSTEM = tr.createNewVocabularyTerm('AGILENT_SURESELECT_ENRICHMENTSYSTEM') vocabulary_term_KIT_AGILENT_SURESELECT_ENRICHMENTSYSTEM.setDescription(None) vocabulary_term_KIT_AGILENT_SURESELECT_ENRICHMENTSYSTEM.setLabel('Agilent_SureSelect_EnrichmentSystem') vocabulary_term_KIT_AGILENT_SURESELECT_ENRICHMENTSYSTEM.setOrdinal(10) vocabulary_KIT.addTerm(vocabulary_term_KIT_AGILENT_SURESELECT_ENRICHMENTSYSTEM) vocabulary_term_KIT_TRUSEQRNA_SAMPLE_PREP_KIT = tr.createNewVocabularyTerm('TRUSEQRNA_SAMPLE_PREP_KIT') vocabulary_term_KIT_TRUSEQRNA_SAMPLE_PREP_KIT.setDescription(None) vocabulary_term_KIT_TRUSEQRNA_SAMPLE_PREP_KIT.setLabel('TruSeq_RNA_SamplePrepKit_Illumina') vocabulary_term_KIT_TRUSEQRNA_SAMPLE_PREP_KIT.setOrdinal(11) vocabulary_KIT.addTerm(vocabulary_term_KIT_TRUSEQRNA_SAMPLE_PREP_KIT) vocabulary_term_KIT_TRUSEQ_DNA_SAMPLE_PREP_KIT = tr.createNewVocabularyTerm('TRUSEQ_DNA_SAMPLE_PREP_KIT') vocabulary_term_KIT_TRUSEQ_DNA_SAMPLE_PREP_KIT.setDescription(None) vocabulary_term_KIT_TRUSEQ_DNA_SAMPLE_PREP_KIT.setLabel('TruSeq_DNA_SamplePrepKit_Illumina') vocabulary_term_KIT_TRUSEQ_DNA_SAMPLE_PREP_KIT.setOrdinal(12) vocabulary_KIT.addTerm(vocabulary_term_KIT_TRUSEQ_DNA_SAMPLE_PREP_KIT) vocabulary_term_KIT_NONE = tr.createNewVocabularyTerm('NONE') vocabulary_term_KIT_NONE.setDescription(None) vocabulary_term_KIT_NONE.setLabel('None (Already prepared)') vocabulary_term_KIT_NONE.setOrdinal(13) vocabulary_KIT.addTerm(vocabulary_term_KIT_NONE) vocabulary_MACS_VERSION = tr.getOrCreateNewVocabulary('MACS_VERSION') vocabulary_MACS_VERSION.setDescription('Used MACS version for Peak Calling') vocabulary_MACS_VERSION.setUrlTemplate(None) vocabulary_MACS_VERSION.setManagedInternally(False) vocabulary_MACS_VERSION.setInternalNamespace(False) vocabulary_MACS_VERSION.setChosenFromList(True) vocabulary_term_MACS_VERSION_140RC2 = tr.createNewVocabularyTerm('1.4.0RC2') vocabulary_term_MACS_VERSION_140RC2.setDescription(None) vocabulary_term_MACS_VERSION_140RC2.setLabel('macs14 1.4.0rc2 20110214 (Valentine)') vocabulary_term_MACS_VERSION_140RC2.setOrdinal(1) vocabulary_MACS_VERSION.addTerm(vocabulary_term_MACS_VERSION_140RC2) vocabulary_term_MACS_VERSION_1371 = tr.createNewVocabularyTerm('1.3.7.1') vocabulary_term_MACS_VERSION_1371.setDescription(None) vocabulary_term_MACS_VERSION_1371.setLabel('macs 1.3.7.1 (Oktoberfest, bug fixed #1)') vocabulary_term_MACS_VERSION_1371.setOrdinal(2) vocabulary_MACS_VERSION.addTerm(vocabulary_term_MACS_VERSION_1371) vocabulary_MISMATCH_IN_INDEX = tr.getOrCreateNewVocabulary('MISMATCH_IN_INDEX') vocabulary_MISMATCH_IN_INDEX.setDescription('Mismatch in Index allowed') vocabulary_MISMATCH_IN_INDEX.setUrlTemplate(None) vocabulary_MISMATCH_IN_INDEX.setManagedInternally(False) vocabulary_MISMATCH_IN_INDEX.setInternalNamespace(False) vocabulary_MISMATCH_IN_INDEX.setChosenFromList(True) vocabulary_term_MISMATCH_IN_INDEX_NONE = tr.createNewVocabularyTerm('NONE') vocabulary_term_MISMATCH_IN_INDEX_NONE.setDescription(None) vocabulary_term_MISMATCH_IN_INDEX_NONE.setLabel(None) vocabulary_term_MISMATCH_IN_INDEX_NONE.setOrdinal(1) vocabulary_MISMATCH_IN_INDEX.addTerm(vocabulary_term_MISMATCH_IN_INDEX_NONE) vocabulary_term_MISMATCH_IN_INDEX_ONE = tr.createNewVocabularyTerm('ONE') vocabulary_term_MISMATCH_IN_INDEX_ONE.setDescription(None) vocabulary_term_MISMATCH_IN_INDEX_ONE.setLabel(None) vocabulary_term_MISMATCH_IN_INDEX_ONE.setOrdinal(2) vocabulary_MISMATCH_IN_INDEX.addTerm(vocabulary_term_MISMATCH_IN_INDEX_ONE) vocabulary_NANO_DROP = tr.getOrCreateNewVocabulary('NANO_DROP') vocabulary_NANO_DROP.setDescription('Device for measuring the total amount of genetic material contained in the probe') vocabulary_NANO_DROP.setUrlTemplate(None) vocabulary_NANO_DROP.setManagedInternally(False) vocabulary_NANO_DROP.setInternalNamespace(False) vocabulary_NANO_DROP.setChosenFromList(True) vocabulary_term_NANO_DROP_CONCND3300 = tr.createNewVocabularyTerm('CONCND3300') vocabulary_term_NANO_DROP_CONCND3300.setDescription(None) vocabulary_term_NANO_DROP_CONCND3300.setLabel('Conc Nano Drop 3300') vocabulary_term_NANO_DROP_CONCND3300.setOrdinal(1) vocabulary_NANO_DROP.addTerm(vocabulary_term_NANO_DROP_CONCND3300) vocabulary_term_NANO_DROP_CONCND1000 = tr.createNewVocabularyTerm('CONCND1000') vocabulary_term_NANO_DROP_CONCND1000.setDescription(None) vocabulary_term_NANO_DROP_CONCND1000.setLabel('Conc Nano Drop 1000') vocabulary_term_NANO_DROP_CONCND1000.setOrdinal(2) vocabulary_NANO_DROP.addTerm(vocabulary_term_NANO_DROP_CONCND1000) vocabulary_term_NANO_DROP_CONCND2000 = tr.createNewVocabularyTerm('CONCND2000') vocabulary_term_NANO_DROP_CONCND2000.setDescription(None) vocabulary_term_NANO_DROP_CONCND2000.setLabel('Conc Nano Drop 2000') vocabulary_term_NANO_DROP_CONCND2000.setOrdinal(3) vocabulary_NANO_DROP.addTerm(vocabulary_term_NANO_DROP_CONCND2000) vocabulary_NCBI_TAXONOMY = tr.getOrCreateNewVocabulary('NCBI_TAXONOMY') vocabulary_NCBI_TAXONOMY.setDescription(None) vocabulary_NCBI_TAXONOMY.setUrlTemplate('http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=$term$') vocabulary_NCBI_TAXONOMY.setManagedInternally(False) vocabulary_NCBI_TAXONOMY.setInternalNamespace(False) vocabulary_NCBI_TAXONOMY.setChosenFromList(True) vocabulary_term_NCBI_TAXONOMY_10090 = tr.createNewVocabularyTerm('10090') vocabulary_term_NCBI_TAXONOMY_10090.setDescription('Genbank common name: house mouse\ Inherited blast name: rodents') vocabulary_term_NCBI_TAXONOMY_10090.setLabel('Mus musculus') vocabulary_term_NCBI_TAXONOMY_10090.setOrdinal(1) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_10090) vocabulary_term_NCBI_TAXONOMY_9606 = tr.createNewVocabularyTerm('9606') vocabulary_term_NCBI_TAXONOMY_9606.setDescription('Genbank common name: human\ Inherited blast name: primates') vocabulary_term_NCBI_TAXONOMY_9606.setLabel('Homo sapiens') vocabulary_term_NCBI_TAXONOMY_9606.setOrdinal(2) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_9606) vocabulary_term_NCBI_TAXONOMY_7227 = tr.createNewVocabularyTerm('7227') vocabulary_term_NCBI_TAXONOMY_7227.setDescription('Genbank common name: fruit fly\ Inherited blast name: flies') vocabulary_term_NCBI_TAXONOMY_7227.setLabel('Drosophila melanogaster') vocabulary_term_NCBI_TAXONOMY_7227.setOrdinal(3) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_7227) vocabulary_term_NCBI_TAXONOMY_6239 = tr.createNewVocabularyTerm('6239') vocabulary_term_NCBI_TAXONOMY_6239.setDescription('Inherited blast name: nematodes') vocabulary_term_NCBI_TAXONOMY_6239.setLabel('Caenorhabditis elegans') vocabulary_term_NCBI_TAXONOMY_6239.setOrdinal(4) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_6239) vocabulary_term_NCBI_TAXONOMY_4932 = tr.createNewVocabularyTerm('4932') vocabulary_term_NCBI_TAXONOMY_4932.setDescription('Genbank common name: baker\'s yeast\ Inherited blast name: ascomycetes') vocabulary_term_NCBI_TAXONOMY_4932.setLabel('Saccharomyces cerevisiae') vocabulary_term_NCBI_TAXONOMY_4932.setOrdinal(5) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_4932) vocabulary_term_NCBI_TAXONOMY_10116 = tr.createNewVocabularyTerm('10116') vocabulary_term_NCBI_TAXONOMY_10116.setDescription('Genbank common name: Norway rat\ Inherited blast name: rodents') vocabulary_term_NCBI_TAXONOMY_10116.setLabel('Rattus norvegicus') vocabulary_term_NCBI_TAXONOMY_10116.setOrdinal(6) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_10116) vocabulary_term_NCBI_TAXONOMY_6669 = tr.createNewVocabularyTerm('6669') vocabulary_term_NCBI_TAXONOMY_6669.setDescription('Genbank common name: common water flea\ Inherited blast name: crustaceans') vocabulary_term_NCBI_TAXONOMY_6669.setLabel('Daphnia pulex') vocabulary_term_NCBI_TAXONOMY_6669.setOrdinal(7) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_6669) vocabulary_term_NCBI_TAXONOMY_562 = tr.createNewVocabularyTerm('562') vocabulary_term_NCBI_TAXONOMY_562.setDescription('Inherited blast name: enterobacteria') vocabulary_term_NCBI_TAXONOMY_562.setLabel('Escherichia coli') vocabulary_term_NCBI_TAXONOMY_562.setOrdinal(8) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_562) vocabulary_term_NCBI_TAXONOMY_623 = tr.createNewVocabularyTerm('623') vocabulary_term_NCBI_TAXONOMY_623.setDescription('Inherited blast name: enterobacteria') vocabulary_term_NCBI_TAXONOMY_623.setLabel('Shigella flexneri') vocabulary_term_NCBI_TAXONOMY_623.setOrdinal(9) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_623) vocabulary_term_NCBI_TAXONOMY_10847 = tr.createNewVocabularyTerm('10847') vocabulary_term_NCBI_TAXONOMY_10847.setDescription('Inherited blast name: viruses') vocabulary_term_NCBI_TAXONOMY_10847.setLabel('Enterobacteria phage phiX174') vocabulary_term_NCBI_TAXONOMY_10847.setOrdinal(10) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_10847) vocabulary_term_NCBI_TAXONOMY_190650 = tr.createNewVocabularyTerm('190650') vocabulary_term_NCBI_TAXONOMY_190650.setDescription('Inherited blast name: a-proteobacteria') vocabulary_term_NCBI_TAXONOMY_190650.setLabel('Caulobacter crescentus CB15') vocabulary_term_NCBI_TAXONOMY_190650.setOrdinal(11) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_190650) vocabulary_term_NCBI_TAXONOMY_8113 = tr.createNewVocabularyTerm('8113') vocabulary_term_NCBI_TAXONOMY_8113.setDescription('Genbank common name: cichlids\ Inherited blast name: bony fishes') vocabulary_term_NCBI_TAXONOMY_8113.setLabel('Cichlidae') vocabulary_term_NCBI_TAXONOMY_8113.setOrdinal(12) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_8113) vocabulary_term_NCBI_TAXONOMY_481459 = tr.createNewVocabularyTerm('481459') vocabulary_term_NCBI_TAXONOMY_481459.setDescription('Genbank common name: three-spined stickleback\ Inherited blast name: bony fishes') vocabulary_term_NCBI_TAXONOMY_481459.setLabel('Gasterosteus aculeatus aculeatus') vocabulary_term_NCBI_TAXONOMY_481459.setOrdinal(13) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_481459) vocabulary_term_NCBI_TAXONOMY_282301 = tr.createNewVocabularyTerm('282301') vocabulary_term_NCBI_TAXONOMY_282301.setDescription('Inherited blast name: flatworms') vocabulary_term_NCBI_TAXONOMY_282301.setLabel('Macrostomum lignano') vocabulary_term_NCBI_TAXONOMY_282301.setOrdinal(14) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_282301) vocabulary_term_NCBI_TAXONOMY_99287 = tr.createNewVocabularyTerm('99287') vocabulary_term_NCBI_TAXONOMY_99287.setDescription('Inherited blast name: enterobacteria') vocabulary_term_NCBI_TAXONOMY_99287.setLabel('Salmonella enterica subsp. enterica serovar Typhimurium str. LT2') vocabulary_term_NCBI_TAXONOMY_99287.setOrdinal(15) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_99287) vocabulary_term_NCBI_TAXONOMY_4896 = tr.createNewVocabularyTerm('4896') vocabulary_term_NCBI_TAXONOMY_4896.setDescription('Genbank common name: fission yeast\ Inherited blast name: ascomycetes') vocabulary_term_NCBI_TAXONOMY_4896.setLabel('Schizosaccharomyces pombe') vocabulary_term_NCBI_TAXONOMY_4896.setOrdinal(16) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_4896) vocabulary_term_NCBI_TAXONOMY_4897 = tr.createNewVocabularyTerm('4897') vocabulary_term_NCBI_TAXONOMY_4897.setDescription('Inherited blast name: ascomycetes') vocabulary_term_NCBI_TAXONOMY_4897.setLabel('Schizosaccharomyces japonicus') vocabulary_term_NCBI_TAXONOMY_4897.setOrdinal(17) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_4897) vocabulary_term_NCBI_TAXONOMY_7955 = tr.createNewVocabularyTerm('7955') vocabulary_term_NCBI_TAXONOMY_7955.setDescription('Genbank common name: zebrafish\ Inherited blast name: bony fishes') vocabulary_term_NCBI_TAXONOMY_7955.setLabel('Danio rerio') vocabulary_term_NCBI_TAXONOMY_7955.setOrdinal(18) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_7955) vocabulary_term_NCBI_TAXONOMY_3702 = tr.createNewVocabularyTerm('3702') vocabulary_term_NCBI_TAXONOMY_3702.setDescription('Genbank common name: thale cress\ Inherited blast name: eudicots') vocabulary_term_NCBI_TAXONOMY_3702.setLabel('Arabidopsis thaliana') vocabulary_term_NCBI_TAXONOMY_3702.setOrdinal(19) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_3702) vocabulary_term_NCBI_TAXONOMY_225322 = tr.createNewVocabularyTerm('225322') vocabulary_term_NCBI_TAXONOMY_225322.setDescription('Bacterium which infects Daphnia\ Pasteuria ramosa Metchnikoff 1888 (Approved Lists 1980) emend. Starr et al. 1986\ Ebert D, Rainey P, Embley TM, Scholz D. Development, life\ cycle, ultrastructure and phylogenetic position of Pasteuria ramosa Metchnikoff 1888: rediscovery of an obligate \ endoparasite of Daphnia magna Straus. Philos Trans R Soc \ Lond Ser B. 1996;351:1689.') vocabulary_term_NCBI_TAXONOMY_225322.setLabel('Pasteuria ramosa') vocabulary_term_NCBI_TAXONOMY_225322.setOrdinal(20) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_225322) vocabulary_term_NCBI_TAXONOMY_9913 = tr.createNewVocabularyTerm('9913') vocabulary_term_NCBI_TAXONOMY_9913.setDescription('Genbank common name: cattle\ Inherited blast name: even-toed ungulates') vocabulary_term_NCBI_TAXONOMY_9913.setLabel('Bos taurus') vocabulary_term_NCBI_TAXONOMY_9913.setOrdinal(21) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_9913) vocabulary_term_NCBI_TAXONOMY_9823 = tr.createNewVocabularyTerm('9823') vocabulary_term_NCBI_TAXONOMY_9823.setDescription('Genbank common name: pig\ Inherited blast name: even-toed ungulates') vocabulary_term_NCBI_TAXONOMY_9823.setLabel('Sus scrofa') vocabulary_term_NCBI_TAXONOMY_9823.setOrdinal(22) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_9823) vocabulary_term_NCBI_TAXONOMY_9940 = tr.createNewVocabularyTerm('9940') vocabulary_term_NCBI_TAXONOMY_9940.setDescription('Genbank common name: sheep\ Inherited blast name: even-toed ungulates') vocabulary_term_NCBI_TAXONOMY_9940.setLabel('Ovis aries') vocabulary_term_NCBI_TAXONOMY_9940.setOrdinal(23) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_9940) vocabulary_term_NCBI_TAXONOMY_9925 = tr.createNewVocabularyTerm('9925') vocabulary_term_NCBI_TAXONOMY_9925.setDescription('Genbank common name: goat\ Inherited blast name: even-toed ungulates') vocabulary_term_NCBI_TAXONOMY_9925.setLabel('Capra hircus') vocabulary_term_NCBI_TAXONOMY_9925.setOrdinal(24) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_9925) vocabulary_term_NCBI_TAXONOMY_8153 = tr.createNewVocabularyTerm('8153') vocabulary_term_NCBI_TAXONOMY_8153.setDescription('Common name: cichlid fish') vocabulary_term_NCBI_TAXONOMY_8153.setLabel('Haplochromis burtoni') vocabulary_term_NCBI_TAXONOMY_8153.setOrdinal(25) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_8153) vocabulary_term_NCBI_TAXONOMY_61818 = tr.createNewVocabularyTerm('61818') vocabulary_term_NCBI_TAXONOMY_61818.setDescription('Common name: bony fish') vocabulary_term_NCBI_TAXONOMY_61818.setLabel('Amphilophus (nicaraguan)') vocabulary_term_NCBI_TAXONOMY_61818.setOrdinal(26) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_61818) vocabulary_term_NCBI_TAXONOMY_35525 = tr.createNewVocabularyTerm('35525') vocabulary_term_NCBI_TAXONOMY_35525.setDescription('Common name: water flea') vocabulary_term_NCBI_TAXONOMY_35525.setLabel('Daphnia Magna') vocabulary_term_NCBI_TAXONOMY_35525.setOrdinal(27) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_35525) vocabulary_term_NCBI_TAXONOMY_4081 = tr.createNewVocabularyTerm('4081') vocabulary_term_NCBI_TAXONOMY_4081.setDescription('Common Name: tomato') vocabulary_term_NCBI_TAXONOMY_4081.setLabel('Solanum lycopersicum (tomato)') vocabulary_term_NCBI_TAXONOMY_4081.setOrdinal(28) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_4081) vocabulary_term_NCBI_TAXONOMY_13068 = tr.createNewVocabularyTerm('13068') vocabulary_term_NCBI_TAXONOMY_13068.setDescription('Common name: earwig') vocabulary_term_NCBI_TAXONOMY_13068.setLabel('Forficula auricularia (earwig)') vocabulary_term_NCBI_TAXONOMY_13068.setOrdinal(29) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_13068) vocabulary_term_NCBI_TAXONOMY_3569 = tr.createNewVocabularyTerm('3569') vocabulary_term_NCBI_TAXONOMY_3569.setDescription('Genbank common name: clove pink') vocabulary_term_NCBI_TAXONOMY_3569.setLabel('Dianthus') vocabulary_term_NCBI_TAXONOMY_3569.setOrdinal(30) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_3569) vocabulary_term_NCBI_TAXONOMY_3573 = tr.createNewVocabularyTerm('3573') vocabulary_term_NCBI_TAXONOMY_3573.setDescription('Genbank common name: campions\ Inherited blast name: eudicots') vocabulary_term_NCBI_TAXONOMY_3573.setLabel('Silene') vocabulary_term_NCBI_TAXONOMY_3573.setOrdinal(31) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_3573) vocabulary_term_NCBI_TAXONOMY_32644 = tr.createNewVocabularyTerm('32644') vocabulary_term_NCBI_TAXONOMY_32644.setDescription('Inherited blast name: unclassified') vocabulary_term_NCBI_TAXONOMY_32644.setLabel('unidentified') vocabulary_term_NCBI_TAXONOMY_32644.setOrdinal(32) vocabulary_NCBI_TAXONOMY.addTerm(vocabulary_term_NCBI_TAXONOMY_32644) vocabulary_PIPELINE_VERSION = tr.getOrCreateNewVocabulary('PIPELINE_VERSION') vocabulary_PIPELINE_VERSION.setDescription('With which pipeline version has the data been analyzed?') vocabulary_PIPELINE_VERSION.setUrlTemplate(None) vocabulary_PIPELINE_VERSION.setManagedInternally(False) vocabulary_PIPELINE_VERSION.setInternalNamespace(False) vocabulary_PIPELINE_VERSION.setChosenFromList(True) vocabulary_term_PIPELINE_VERSION_11348 = tr.createNewVocabularyTerm('1.13.48') vocabulary_term_PIPELINE_VERSION_11348.setDescription(None) vocabulary_term_PIPELINE_VERSION_11348.setLabel('RTA 1.13.48') vocabulary_term_PIPELINE_VERSION_11348.setOrdinal(1) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_11348) vocabulary_term_PIPELINE_VERSION_11242 = tr.createNewVocabularyTerm('1.12.4.2') vocabulary_term_PIPELINE_VERSION_11242.setDescription('Real Time Analysis in combination with HCS 1.4.8') vocabulary_term_PIPELINE_VERSION_11242.setLabel('RTA 1.12.4.2 (HiSeq 2000)') vocabulary_term_PIPELINE_VERSION_11242.setOrdinal(2) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_11242) vocabulary_term_PIPELINE_VERSION_112 = tr.createNewVocabularyTerm('1.12') vocabulary_term_PIPELINE_VERSION_112.setDescription('Real Time Analysis 1.12 HiSeq 2000') vocabulary_term_PIPELINE_VERSION_112.setLabel('RTA 1.12') vocabulary_term_PIPELINE_VERSION_112.setOrdinal(4) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_112) vocabulary_term_PIPELINE_VERSION_19 = tr.createNewVocabularyTerm('1.9') vocabulary_term_PIPELINE_VERSION_19.setDescription('Real Time Analysis 1.9') vocabulary_term_PIPELINE_VERSION_19.setLabel('RTA 1.9 (GA IIx)') vocabulary_term_PIPELINE_VERSION_19.setOrdinal(5) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_19) vocabulary_term_PIPELINE_VERSION_RTA_18 = tr.createNewVocabularyTerm('RTA_1.8') vocabulary_term_PIPELINE_VERSION_RTA_18.setDescription('Real Time Analysis 1.8') vocabulary_term_PIPELINE_VERSION_RTA_18.setLabel('RTA 1.8') vocabulary_term_PIPELINE_VERSION_RTA_18.setOrdinal(6) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_RTA_18) vocabulary_term_PIPELINE_VERSION_RTA_16 = tr.createNewVocabularyTerm('RTA_1.6') vocabulary_term_PIPELINE_VERSION_RTA_16.setDescription('Real Time Analysis 1.6') vocabulary_term_PIPELINE_VERSION_RTA_16.setLabel('RTA 1.6') vocabulary_term_PIPELINE_VERSION_RTA_16.setOrdinal(7) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_RTA_16) vocabulary_term_PIPELINE_VERSION_RTA_15 = tr.createNewVocabularyTerm('RTA_1.5') vocabulary_term_PIPELINE_VERSION_RTA_15.setDescription(None) vocabulary_term_PIPELINE_VERSION_RTA_15.setLabel('RTA 1.5') vocabulary_term_PIPELINE_VERSION_RTA_15.setOrdinal(8) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_RTA_15) vocabulary_term_PIPELINE_VERSION_RTA_14150 = tr.createNewVocabularyTerm('RTA_1.4.15.0') vocabulary_term_PIPELINE_VERSION_RTA_14150.setDescription(None) vocabulary_term_PIPELINE_VERSION_RTA_14150.setLabel('RTA 1.4.15.0') vocabulary_term_PIPELINE_VERSION_RTA_14150.setOrdinal(9) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_RTA_14150) vocabulary_term_PIPELINE_VERSION_15 = tr.createNewVocabularyTerm('1.5') vocabulary_term_PIPELINE_VERSION_15.setDescription(None) vocabulary_term_PIPELINE_VERSION_15.setLabel(None) vocabulary_term_PIPELINE_VERSION_15.setOrdinal(10) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_15) vocabulary_term_PIPELINE_VERSION_14 = tr.createNewVocabularyTerm('1.4') vocabulary_term_PIPELINE_VERSION_14.setDescription(None) vocabulary_term_PIPELINE_VERSION_14.setLabel(None) vocabulary_term_PIPELINE_VERSION_14.setOrdinal(11) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_14) vocabulary_term_PIPELINE_VERSION_132 = tr.createNewVocabularyTerm('1.3.2') vocabulary_term_PIPELINE_VERSION_132.setDescription(None) vocabulary_term_PIPELINE_VERSION_132.setLabel(None) vocabulary_term_PIPELINE_VERSION_132.setOrdinal(12) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_132) vocabulary_term_PIPELINE_VERSION_10 = tr.createNewVocabularyTerm('1.0') vocabulary_term_PIPELINE_VERSION_10.setDescription(None) vocabulary_term_PIPELINE_VERSION_10.setLabel(None) vocabulary_term_PIPELINE_VERSION_10.setOrdinal(13) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_10) vocabulary_term_PIPELINE_VERSION_PRE_10 = tr.createNewVocabularyTerm('PRE_1.0') vocabulary_term_PIPELINE_VERSION_PRE_10.setDescription('Before Pipeline Version 1.0') vocabulary_term_PIPELINE_VERSION_PRE_10.setLabel(None) vocabulary_term_PIPELINE_VERSION_PRE_10.setOrdinal(14) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_PRE_10) vocabulary_term_PIPELINE_VERSION_NONE = tr.createNewVocabularyTerm('NONE') vocabulary_term_PIPELINE_VERSION_NONE.setDescription(None) vocabulary_term_PIPELINE_VERSION_NONE.setLabel(None) vocabulary_term_PIPELINE_VERSION_NONE.setOrdinal(15) vocabulary_PIPELINE_VERSION.addTerm(vocabulary_term_PIPELINE_VERSION_NONE) vocabulary_REQUIRED_LANES = tr.getOrCreateNewVocabulary('REQUIRED_LANES') vocabulary_REQUIRED_LANES.setDescription('Amount of lanes needed for this probe') vocabulary_REQUIRED_LANES.setUrlTemplate(None) vocabulary_REQUIRED_LANES.setManagedInternally(False) vocabulary_REQUIRED_LANES.setInternalNamespace(False) vocabulary_REQUIRED_LANES.setChosenFromList(True) vocabulary_term_REQUIRED_LANES_1 = tr.createNewVocabularyTerm('1') vocabulary_term_REQUIRED_LANES_1.setDescription(None) vocabulary_term_REQUIRED_LANES_1.setLabel(None) vocabulary_term_REQUIRED_LANES_1.setOrdinal(1) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_1) vocabulary_term_REQUIRED_LANES_2 = tr.createNewVocabularyTerm('2') vocabulary_term_REQUIRED_LANES_2.setDescription(None) vocabulary_term_REQUIRED_LANES_2.setLabel(None) vocabulary_term_REQUIRED_LANES_2.setOrdinal(2) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_2) vocabulary_term_REQUIRED_LANES_3 = tr.createNewVocabularyTerm('3') vocabulary_term_REQUIRED_LANES_3.setDescription(None) vocabulary_term_REQUIRED_LANES_3.setLabel(None) vocabulary_term_REQUIRED_LANES_3.setOrdinal(3) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_3) vocabulary_term_REQUIRED_LANES_4 = tr.createNewVocabularyTerm('4') vocabulary_term_REQUIRED_LANES_4.setDescription(None) vocabulary_term_REQUIRED_LANES_4.setLabel(None) vocabulary_term_REQUIRED_LANES_4.setOrdinal(4) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_4) vocabulary_term_REQUIRED_LANES_5 = tr.createNewVocabularyTerm('5') vocabulary_term_REQUIRED_LANES_5.setDescription(None) vocabulary_term_REQUIRED_LANES_5.setLabel(None) vocabulary_term_REQUIRED_LANES_5.setOrdinal(5) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_5) vocabulary_term_REQUIRED_LANES_6 = tr.createNewVocabularyTerm('6') vocabulary_term_REQUIRED_LANES_6.setDescription(None) vocabulary_term_REQUIRED_LANES_6.setLabel(None) vocabulary_term_REQUIRED_LANES_6.setOrdinal(6) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_6) vocabulary_term_REQUIRED_LANES_7 = tr.createNewVocabularyTerm('7') vocabulary_term_REQUIRED_LANES_7.setDescription(None) vocabulary_term_REQUIRED_LANES_7.setLabel(None) vocabulary_term_REQUIRED_LANES_7.setOrdinal(7) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_7) vocabulary_term_REQUIRED_LANES_8 = tr.createNewVocabularyTerm('8') vocabulary_term_REQUIRED_LANES_8.setDescription(None) vocabulary_term_REQUIRED_LANES_8.setLabel(None) vocabulary_term_REQUIRED_LANES_8.setOrdinal(8) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_8) vocabulary_term_REQUIRED_LANES_9 = tr.createNewVocabularyTerm('9') vocabulary_term_REQUIRED_LANES_9.setDescription(None) vocabulary_term_REQUIRED_LANES_9.setLabel(None) vocabulary_term_REQUIRED_LANES_9.setOrdinal(9) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_9) vocabulary_term_REQUIRED_LANES_10 = tr.createNewVocabularyTerm('10') vocabulary_term_REQUIRED_LANES_10.setDescription(None) vocabulary_term_REQUIRED_LANES_10.setLabel(None) vocabulary_term_REQUIRED_LANES_10.setOrdinal(10) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_10) vocabulary_term_REQUIRED_LANES_11 = tr.createNewVocabularyTerm('11') vocabulary_term_REQUIRED_LANES_11.setDescription(None) vocabulary_term_REQUIRED_LANES_11.setLabel(None) vocabulary_term_REQUIRED_LANES_11.setOrdinal(11) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_11) vocabulary_term_REQUIRED_LANES_12 = tr.createNewVocabularyTerm('12') vocabulary_term_REQUIRED_LANES_12.setDescription(None) vocabulary_term_REQUIRED_LANES_12.setLabel(None) vocabulary_term_REQUIRED_LANES_12.setOrdinal(12) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_12) vocabulary_term_REQUIRED_LANES_13 = tr.createNewVocabularyTerm('13') vocabulary_term_REQUIRED_LANES_13.setDescription(None) vocabulary_term_REQUIRED_LANES_13.setLabel(None) vocabulary_term_REQUIRED_LANES_13.setOrdinal(13) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_13) vocabulary_term_REQUIRED_LANES_14 = tr.createNewVocabularyTerm('14') vocabulary_term_REQUIRED_LANES_14.setDescription(None) vocabulary_term_REQUIRED_LANES_14.setLabel(None) vocabulary_term_REQUIRED_LANES_14.setOrdinal(14) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_14) vocabulary_term_REQUIRED_LANES_15 = tr.createNewVocabularyTerm('15') vocabulary_term_REQUIRED_LANES_15.setDescription(None) vocabulary_term_REQUIRED_LANES_15.setLabel(None) vocabulary_term_REQUIRED_LANES_15.setOrdinal(15) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_15) vocabulary_term_REQUIRED_LANES_16 = tr.createNewVocabularyTerm('16') vocabulary_term_REQUIRED_LANES_16.setDescription(None) vocabulary_term_REQUIRED_LANES_16.setLabel(None) vocabulary_term_REQUIRED_LANES_16.setOrdinal(16) vocabulary_REQUIRED_LANES.addTerm(vocabulary_term_REQUIRED_LANES_16) vocabulary_SAMPLE_LIBRARY_SELECTION = tr.getOrCreateNewVocabulary('SAMPLE_LIBRARY_SELECTION') vocabulary_SAMPLE_LIBRARY_SELECTION.setDescription('Describes whether any method was used to select and/or enrich the material being sequenced.') vocabulary_SAMPLE_LIBRARY_SELECTION.setUrlTemplate(None) vocabulary_SAMPLE_LIBRARY_SELECTION.setManagedInternally(False) vocabulary_SAMPLE_LIBRARY_SELECTION.setInternalNamespace(False) vocabulary_SAMPLE_LIBRARY_SELECTION.setChosenFromList(True) vocabulary_term_SAMPLE_LIBRARY_SELECTION_CHIP = tr.createNewVocabularyTerm('CHIP') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CHIP.setDescription('Chromatin immunoprecipitation') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CHIP.setLabel('ChIP') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CHIP.setOrdinal(1) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_CHIP) vocabulary_term_SAMPLE_LIBRARY_SELECTION_MNASE = tr.createNewVocabularyTerm('MNASE') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MNASE.setDescription('Micrococcal Nuclease (MNase) digestion') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MNASE.setLabel('MNase') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MNASE.setOrdinal(2) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_MNASE) vocabulary_term_SAMPLE_LIBRARY_SELECTION_RESTRICTION_DIGEST = tr.createNewVocabularyTerm('RESTRICTION_DIGEST') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RESTRICTION_DIGEST.setDescription('Restriction enzyme digestion') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RESTRICTION_DIGEST.setLabel('Restriction Digest') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RESTRICTION_DIGEST.setOrdinal(3) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_RESTRICTION_DIGEST) vocabulary_term_SAMPLE_LIBRARY_SELECTION_5METHYLCYTIDINE_ANTIBODY = tr.createNewVocabularyTerm('5-METHYLCYTIDINE_ANTIBODY') vocabulary_term_SAMPLE_LIBRARY_SELECTION_5METHYLCYTIDINE_ANTIBODY.setDescription('Methylated DNA immunoprecipitation') vocabulary_term_SAMPLE_LIBRARY_SELECTION_5METHYLCYTIDINE_ANTIBODY.setLabel('5-methylcytidine antibody') vocabulary_term_SAMPLE_LIBRARY_SELECTION_5METHYLCYTIDINE_ANTIBODY.setOrdinal(4) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_5METHYLCYTIDINE_ANTIBODY) vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM = tr.createNewVocabularyTerm('RANDOM') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM.setDescription('Random shearing only') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM.setLabel('RANDOM') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM.setOrdinal(5) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM) vocabulary_term_SAMPLE_LIBRARY_SELECTION_MF = tr.createNewVocabularyTerm('MF') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MF.setDescription('Methyl Filtrated') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MF.setLabel('MF') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MF.setOrdinal(6) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_MF) vocabulary_term_SAMPLE_LIBRARY_SELECTION_MSLL = tr.createNewVocabularyTerm('MSLL') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MSLL.setDescription('Methylation Spanning Linking Library') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MSLL.setLabel('MSLL') vocabulary_term_SAMPLE_LIBRARY_SELECTION_MSLL.setOrdinal(7) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_MSLL) vocabulary_term_SAMPLE_LIBRARY_SELECTION_HMPR = tr.createNewVocabularyTerm('HMPR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_HMPR.setDescription('Hypo-methylated partial restriction digest') vocabulary_term_SAMPLE_LIBRARY_SELECTION_HMPR.setLabel('HMPR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_HMPR.setOrdinal(8) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_HMPR) vocabulary_term_SAMPLE_LIBRARY_SELECTION_CDNA = tr.createNewVocabularyTerm('CDNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CDNA.setDescription('complementary DNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CDNA.setLabel('cDNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CDNA.setOrdinal(9) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_CDNA) vocabulary_term_SAMPLE_LIBRARY_SELECTION_PCR = tr.createNewVocabularyTerm('PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_PCR.setDescription('Source material was selected by designed primers') vocabulary_term_SAMPLE_LIBRARY_SELECTION_PCR.setLabel('PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_PCR.setOrdinal(10) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_PCR) vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM_PCR = tr.createNewVocabularyTerm('RANDOM_PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM_PCR.setDescription('Source material was selected by randomly generated primers') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM_PCR.setLabel('RANDOM PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM_PCR.setOrdinal(11) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_RANDOM_PCR) vocabulary_term_SAMPLE_LIBRARY_SELECTION_RTPCR = tr.createNewVocabularyTerm('RT-PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RTPCR.setDescription('Source material was selected by reverse transcription PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RTPCR.setLabel('RT-PCR') vocabulary_term_SAMPLE_LIBRARY_SELECTION_RTPCR.setOrdinal(12) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_RTPCR) vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFS = tr.createNewVocabularyTerm('CF-S') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFS.setDescription('Cot-filtered single/low-copy genomic DNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFS.setLabel('CF-S') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFS.setOrdinal(13) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFS) vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFM = tr.createNewVocabularyTerm('CF-M') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFM.setDescription('Cot-filtered moderately repetitive genomic DNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFM.setLabel('CF-M') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFM.setOrdinal(14) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFM) vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFH = tr.createNewVocabularyTerm('CF-H') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFH.setDescription('Cot-filtered highly repetitive genomic DNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFH.setLabel('CF-H') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFH.setOrdinal(15) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFH) vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFT = tr.createNewVocabularyTerm('CF-T') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFT.setDescription('Cot-filtered theoretical single-copy genomic DNA') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFT.setLabel('CF-T') vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFT.setOrdinal(16) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_CFT) vocabulary_term_SAMPLE_LIBRARY_SELECTION_OTHER = tr.createNewVocabularyTerm('OTHER') vocabulary_term_SAMPLE_LIBRARY_SELECTION_OTHER.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SELECTION_OTHER.setLabel('other') vocabulary_term_SAMPLE_LIBRARY_SELECTION_OTHER.setOrdinal(17) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_OTHER) vocabulary_term_SAMPLE_LIBRARY_SELECTION_UNSPECIFIED = tr.createNewVocabularyTerm('UNSPECIFIED') vocabulary_term_SAMPLE_LIBRARY_SELECTION_UNSPECIFIED.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SELECTION_UNSPECIFIED.setLabel('unspecified') vocabulary_term_SAMPLE_LIBRARY_SELECTION_UNSPECIFIED.setOrdinal(18) vocabulary_SAMPLE_LIBRARY_SELECTION.addTerm(vocabulary_term_SAMPLE_LIBRARY_SELECTION_UNSPECIFIED) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC = tr.getOrCreateNewVocabulary('SAMPLE_LIBRARY_SOURCE_VOC') vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.setDescription(None) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.setUrlTemplate(None) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.setManagedInternally(False) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.setInternalNamespace(False) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.setChosenFromList(True) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_GENOMIC = tr.createNewVocabularyTerm('GENOMIC') vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_GENOMIC.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_GENOMIC.setLabel(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_GENOMIC.setOrdinal(1) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.addTerm(vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_GENOMIC) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_NONGENOMIC = tr.createNewVocabularyTerm('NON-GENOMIC') vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_NONGENOMIC.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_NONGENOMIC.setLabel(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_NONGENOMIC.setOrdinal(2) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.addTerm(vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_NONGENOMIC) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_SYNTHETIC = tr.createNewVocabularyTerm('SYNTHETIC') vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_SYNTHETIC.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_SYNTHETIC.setLabel(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_SYNTHETIC.setOrdinal(3) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.addTerm(vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_SYNTHETIC) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_VIRAL = tr.createNewVocabularyTerm('VIRAL') vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_VIRAL.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_VIRAL.setLabel(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_VIRAL.setOrdinal(4) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.addTerm(vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_VIRAL) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_RNA = tr.createNewVocabularyTerm('RNA') vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_RNA.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_RNA.setLabel(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_RNA.setOrdinal(5) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.addTerm(vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_RNA) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_OTHER = tr.createNewVocabularyTerm('OTHER') vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_OTHER.setDescription(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_OTHER.setLabel(None) vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_OTHER.setOrdinal(6) vocabulary_SAMPLE_LIBRARY_SOURCE_VOC.addTerm(vocabulary_term_SAMPLE_LIBRARY_SOURCE_VOC_OTHER) vocabulary_SAMPLE_LIBRARY_STRATEGY = tr.getOrCreateNewVocabulary('SAMPLE_LIBRARY_STRATEGY') vocabulary_SAMPLE_LIBRARY_STRATEGY.setDescription('Sequencing technique for this library.') vocabulary_SAMPLE_LIBRARY_STRATEGY.setUrlTemplate(None) vocabulary_SAMPLE_LIBRARY_STRATEGY.setManagedInternally(False) vocabulary_SAMPLE_LIBRARY_STRATEGY.setInternalNamespace(False) vocabulary_SAMPLE_LIBRARY_STRATEGY.setChosenFromList(True) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CHIPSEQ = tr.createNewVocabularyTerm('CHIP-SEQ') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CHIPSEQ.setDescription('Direct sequencing of chromatin immunoprecipitates') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CHIPSEQ.setLabel('ChIP-Seq') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CHIPSEQ.setOrdinal(1) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CHIPSEQ) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_RNASEQ = tr.createNewVocabularyTerm('RNA-SEQ') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_RNASEQ.setDescription('RNA sequencing') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_RNASEQ.setLabel('RNA-Seq') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_RNASEQ.setOrdinal(2) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_RNASEQ) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MEDIPSEQ = tr.createNewVocabularyTerm('MEDIP-SEQ') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MEDIPSEQ.setDescription('Methylated DNA immunoprecipitation sequencing') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MEDIPSEQ.setLabel('MeDIP-Seq') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MEDIPSEQ.setOrdinal(3) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MEDIPSEQ) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MNASESEQ = tr.createNewVocabularyTerm('MNASE-SEQ') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MNASESEQ.setDescription('Direct sequencing following MNase digestion') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MNASESEQ.setLabel('MNase-Seq') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MNASESEQ.setOrdinal(4) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MNASESEQ) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MRESEQ = tr.createNewVocabularyTerm('MRE-SEQ') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MRESEQ.setDescription('Methylation-sensitive restriction enzyme sequencing') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MRESEQ.setLabel('MRE-Seq') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MRESEQ.setOrdinal(5) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_MRESEQ) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_EST = tr.createNewVocabularyTerm('EST') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_EST.setDescription('Single pass sequencing of cDNA templates') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_EST.setLabel('EST') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_EST.setOrdinal(6) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_EST) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FLCDNA = tr.createNewVocabularyTerm('FL-CDNA') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FLCDNA.setDescription('Full-length sequencing of cDNA templates') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FLCDNA.setLabel('FL-cDNA') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FLCDNA.setOrdinal(7) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FLCDNA) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CTS = tr.createNewVocabularyTerm('CTS') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CTS.setDescription('Concatenated Tag Sequencing') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CTS.setLabel('CTS') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CTS.setOrdinal(8) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CTS) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_BARCODE = tr.createNewVocabularyTerm('BARCODE') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_BARCODE.setDescription('Sequencing of products that have been tagged with a short identifying sequence (barcode)') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_BARCODE.setLabel('BARCODE') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_BARCODE.setOrdinal(9) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_BARCODE) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONEEND = tr.createNewVocabularyTerm('CLONEEND') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONEEND.setDescription('"Clone end (5\', 3\', or both) sequencing"') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONEEND.setLabel('CLONEEND') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONEEND.setOrdinal(10) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONEEND) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WGS = tr.createNewVocabularyTerm('WGS') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WGS.setDescription('Whole genome shotgun') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WGS.setLabel('WGS') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WGS.setOrdinal(11) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WGS) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WCS = tr.createNewVocabularyTerm('WCS') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WCS.setDescription('Whole chromosome (or other replicon) shotgun') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WCS.setLabel('WCS') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WCS.setOrdinal(12) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_WCS) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONE = tr.createNewVocabularyTerm('CLONE') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONE.setDescription('Genomic clone based (hierarchical) sequencing') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONE.setLabel('CLONE') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONE.setOrdinal(13) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_CLONE) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_POOLCLONE = tr.createNewVocabularyTerm('POOLCLONE') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_POOLCLONE.setDescription('Shotgun of pooled clones (usually BACs and Fosmids)') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_POOLCLONE.setLabel('POOLCLONE') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_POOLCLONE.setOrdinal(14) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_POOLCLONE) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_AMPLICON = tr.createNewVocabularyTerm('AMPLICON') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_AMPLICON.setDescription('Sequencing of overlapping or distinct PCR or RT-PCR products') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_AMPLICON.setLabel('AMPLICON') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_AMPLICON.setOrdinal(15) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_AMPLICON) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FINISHING = tr.createNewVocabularyTerm('FINISHING') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FINISHING.setDescription('Sequencing intended to finish (close) gaps in existing coverage') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FINISHING.setLabel('FINISHING') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FINISHING.setOrdinal(16) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_FINISHING) vocabulary_term_SAMPLE_LIBRARY_STRATEGY_OTHER = tr.createNewVocabularyTerm('OTHER') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_OTHER.setDescription('Library strategy not listed') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_OTHER.setLabel('OTHER') vocabulary_term_SAMPLE_LIBRARY_STRATEGY_OTHER.setOrdinal(17) vocabulary_SAMPLE_LIBRARY_STRATEGY.addTerm(vocabulary_term_SAMPLE_LIBRARY_STRATEGY_OTHER) vocabulary_SAMPLE_MOLECULE = tr.getOrCreateNewVocabulary('SAMPLE_MOLECULE') vocabulary_SAMPLE_MOLECULE.setDescription(None) vocabulary_SAMPLE_MOLECULE.setUrlTemplate(None) vocabulary_SAMPLE_MOLECULE.setManagedInternally(False) vocabulary_SAMPLE_MOLECULE.setInternalNamespace(False) vocabulary_SAMPLE_MOLECULE.setChosenFromList(True) vocabulary_term_SAMPLE_MOLECULE_TOTAL_RNA = tr.createNewVocabularyTerm('TOTAL_RNA') vocabulary_term_SAMPLE_MOLECULE_TOTAL_RNA.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_TOTAL_RNA.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_TOTAL_RNA.setOrdinal(1) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_TOTAL_RNA) vocabulary_term_SAMPLE_MOLECULE_POLYA_RNA = tr.createNewVocabularyTerm('POLYA_RNA') vocabulary_term_SAMPLE_MOLECULE_POLYA_RNA.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_POLYA_RNA.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_POLYA_RNA.setOrdinal(2) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_POLYA_RNA) vocabulary_term_SAMPLE_MOLECULE_CYTOPLASMIC_RNA = tr.createNewVocabularyTerm('CYTOPLASMIC_RNA') vocabulary_term_SAMPLE_MOLECULE_CYTOPLASMIC_RNA.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_CYTOPLASMIC_RNA.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_CYTOPLASMIC_RNA.setOrdinal(3) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_CYTOPLASMIC_RNA) vocabulary_term_SAMPLE_MOLECULE_NUCLEAR_RNA = tr.createNewVocabularyTerm('NUCLEAR_RNA') vocabulary_term_SAMPLE_MOLECULE_NUCLEAR_RNA.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_NUCLEAR_RNA.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_NUCLEAR_RNA.setOrdinal(4) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_NUCLEAR_RNA) vocabulary_term_SAMPLE_MOLECULE_GENOMIC_DNA = tr.createNewVocabularyTerm('GENOMIC_DNA') vocabulary_term_SAMPLE_MOLECULE_GENOMIC_DNA.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_GENOMIC_DNA.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_GENOMIC_DNA.setOrdinal(5) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_GENOMIC_DNA) vocabulary_term_SAMPLE_MOLECULE_PROTEIN = tr.createNewVocabularyTerm('PROTEIN') vocabulary_term_SAMPLE_MOLECULE_PROTEIN.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_PROTEIN.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_PROTEIN.setOrdinal(6) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_PROTEIN) vocabulary_term_SAMPLE_MOLECULE_OTHER = tr.createNewVocabularyTerm('OTHER') vocabulary_term_SAMPLE_MOLECULE_OTHER.setDescription(None) vocabulary_term_SAMPLE_MOLECULE_OTHER.setLabel(None) vocabulary_term_SAMPLE_MOLECULE_OTHER.setOrdinal(7) vocabulary_SAMPLE_MOLECULE.addTerm(vocabulary_term_SAMPLE_MOLECULE_OTHER) vocabulary_SAMPLE_TYPE = tr.getOrCreateNewVocabulary('SAMPLE_TYPE') vocabulary_SAMPLE_TYPE.setDescription('Type of sample delivered by the customer') vocabulary_SAMPLE_TYPE.setUrlTemplate(None) vocabulary_SAMPLE_TYPE.setManagedInternally(False) vocabulary_SAMPLE_TYPE.setInternalNamespace(False) vocabulary_SAMPLE_TYPE.setChosenFromList(True) vocabulary_term_SAMPLE_TYPE_GENOMIC_DNA = tr.createNewVocabularyTerm('GENOMIC_DNA') vocabulary_term_SAMPLE_TYPE_GENOMIC_DNA.setDescription(None) vocabulary_term_SAMPLE_TYPE_GENOMIC_DNA.setLabel(None) vocabulary_term_SAMPLE_TYPE_GENOMIC_DNA.setOrdinal(1) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_GENOMIC_DNA) vocabulary_term_SAMPLE_TYPE_SMALL_RNA = tr.createNewVocabularyTerm('SMALL_RNA') vocabulary_term_SAMPLE_TYPE_SMALL_RNA.setDescription(None) vocabulary_term_SAMPLE_TYPE_SMALL_RNA.setLabel(None) vocabulary_term_SAMPLE_TYPE_SMALL_RNA.setOrdinal(2) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_SMALL_RNA) vocabulary_term_SAMPLE_TYPE_TOTAL_RNA = tr.createNewVocabularyTerm('TOTAL_RNA') vocabulary_term_SAMPLE_TYPE_TOTAL_RNA.setDescription(None) vocabulary_term_SAMPLE_TYPE_TOTAL_RNA.setLabel(None) vocabulary_term_SAMPLE_TYPE_TOTAL_RNA.setOrdinal(3) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_TOTAL_RNA) vocabulary_term_SAMPLE_TYPE_CHIP = tr.createNewVocabularyTerm('CHIP') vocabulary_term_SAMPLE_TYPE_CHIP.setDescription(None) vocabulary_term_SAMPLE_TYPE_CHIP.setLabel(None) vocabulary_term_SAMPLE_TYPE_CHIP.setOrdinal(4) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_CHIP) vocabulary_term_SAMPLE_TYPE_VIRAL = tr.createNewVocabularyTerm('VIRAL') vocabulary_term_SAMPLE_TYPE_VIRAL.setDescription(None) vocabulary_term_SAMPLE_TYPE_VIRAL.setLabel(None) vocabulary_term_SAMPLE_TYPE_VIRAL.setOrdinal(5) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_VIRAL) vocabulary_term_SAMPLE_TYPE_SYNTHETIC = tr.createNewVocabularyTerm('SYNTHETIC') vocabulary_term_SAMPLE_TYPE_SYNTHETIC.setDescription(None) vocabulary_term_SAMPLE_TYPE_SYNTHETIC.setLabel(None) vocabulary_term_SAMPLE_TYPE_SYNTHETIC.setOrdinal(6) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_SYNTHETIC) vocabulary_term_SAMPLE_TYPE_FRAGMENTED_GENOMIC_DNA = tr.createNewVocabularyTerm('FRAGMENTED_GENOMIC_DNA') vocabulary_term_SAMPLE_TYPE_FRAGMENTED_GENOMIC_DNA.setDescription(None) vocabulary_term_SAMPLE_TYPE_FRAGMENTED_GENOMIC_DNA.setLabel(None) vocabulary_term_SAMPLE_TYPE_FRAGMENTED_GENOMIC_DNA.setOrdinal(7) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_FRAGMENTED_GENOMIC_DNA) vocabulary_term_SAMPLE_TYPE_MRNA = tr.createNewVocabularyTerm('MRNA') vocabulary_term_SAMPLE_TYPE_MRNA.setDescription(None) vocabulary_term_SAMPLE_TYPE_MRNA.setLabel(None) vocabulary_term_SAMPLE_TYPE_MRNA.setOrdinal(8) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_MRNA) vocabulary_term_SAMPLE_TYPE_OTHER = tr.createNewVocabularyTerm('OTHER') vocabulary_term_SAMPLE_TYPE_OTHER.setDescription(None) vocabulary_term_SAMPLE_TYPE_OTHER.setLabel(None) vocabulary_term_SAMPLE_TYPE_OTHER.setOrdinal(9) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_OTHER) vocabulary_term_SAMPLE_TYPE_PROCESSED_DNA_LIBRARY = tr.createNewVocabularyTerm('PROCESSED_DNA_LIBRARY') vocabulary_term_SAMPLE_TYPE_PROCESSED_DNA_LIBRARY.setDescription(None) vocabulary_term_SAMPLE_TYPE_PROCESSED_DNA_LIBRARY.setLabel(None) vocabulary_term_SAMPLE_TYPE_PROCESSED_DNA_LIBRARY.setOrdinal(10) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_PROCESSED_DNA_LIBRARY) vocabulary_term_SAMPLE_TYPE_BISULFITE_CHIP = tr.createNewVocabularyTerm('BISULFITE_CHIP') vocabulary_term_SAMPLE_TYPE_BISULFITE_CHIP.setDescription(None) vocabulary_term_SAMPLE_TYPE_BISULFITE_CHIP.setLabel(None) vocabulary_term_SAMPLE_TYPE_BISULFITE_CHIP.setOrdinal(11) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_BISULFITE_CHIP) vocabulary_term_SAMPLE_TYPE_NONGENOMIC = tr.createNewVocabularyTerm('NON-GENOMIC') vocabulary_term_SAMPLE_TYPE_NONGENOMIC.setDescription(None) vocabulary_term_SAMPLE_TYPE_NONGENOMIC.setLabel(None) vocabulary_term_SAMPLE_TYPE_NONGENOMIC.setOrdinal(12) vocabulary_SAMPLE_TYPE.addTerm(vocabulary_term_SAMPLE_TYPE_NONGENOMIC) vocabulary_SBS_SEQUENCING_KIT_VERSION = tr.getOrCreateNewVocabulary('SBS_SEQUENCING_KIT_VERSION') vocabulary_SBS_SEQUENCING_KIT_VERSION.setDescription('Version of the Sequencing by Synthesis (SBS) Kit') vocabulary_SBS_SEQUENCING_KIT_VERSION.setUrlTemplate(None) vocabulary_SBS_SEQUENCING_KIT_VERSION.setManagedInternally(False) vocabulary_SBS_SEQUENCING_KIT_VERSION.setInternalNamespace(False) vocabulary_SBS_SEQUENCING_KIT_VERSION.setChosenFromList(True) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_TRUSEQ_V5 = tr.createNewVocabularyTerm('TRUSEQ_V5') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_TRUSEQ_V5.setDescription(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_TRUSEQ_V5.setLabel('TruSeq v5') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_TRUSEQ_V5.setOrdinal(1) vocabulary_SBS_SEQUENCING_KIT_VERSION.addTerm(vocabulary_term_SBS_SEQUENCING_KIT_VERSION_TRUSEQ_V5) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V5 = tr.createNewVocabularyTerm('V5') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V5.setDescription(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V5.setLabel(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V5.setOrdinal(2) vocabulary_SBS_SEQUENCING_KIT_VERSION.addTerm(vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V5) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V4 = tr.createNewVocabularyTerm('V4') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V4.setDescription(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V4.setLabel(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V4.setOrdinal(3) vocabulary_SBS_SEQUENCING_KIT_VERSION.addTerm(vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V4) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V3 = tr.createNewVocabularyTerm('V3') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V3.setDescription(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V3.setLabel(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V3.setOrdinal(4) vocabulary_SBS_SEQUENCING_KIT_VERSION.addTerm(vocabulary_term_SBS_SEQUENCING_KIT_VERSION_V3) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_SBS_HS_V3 = tr.createNewVocabularyTerm('SBS_HS_V3') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_SBS_HS_V3.setDescription(None) vocabulary_term_SBS_SEQUENCING_KIT_VERSION_SBS_HS_V3.setLabel('TruSeq SBS HS v3') vocabulary_term_SBS_SEQUENCING_KIT_VERSION_SBS_HS_V3.setOrdinal(5) vocabulary_SBS_SEQUENCING_KIT_VERSION.addTerm(vocabulary_term_SBS_SEQUENCING_KIT_VERSION_SBS_HS_V3) vocabulary_SCS_PROTOCOL_VERSION = tr.getOrCreateNewVocabulary('SCS_PROTOCOL_VERSION') vocabulary_SCS_PROTOCOL_VERSION.setDescription('THE Illumina protocol') vocabulary_SCS_PROTOCOL_VERSION.setUrlTemplate(None) vocabulary_SCS_PROTOCOL_VERSION.setManagedInternally(False) vocabulary_SCS_PROTOCOL_VERSION.setInternalNamespace(False) vocabulary_SCS_PROTOCOL_VERSION.setChosenFromList(True) vocabulary_term_SCS_PROTOCOL_VERSION_V8 = tr.createNewVocabularyTerm('V8') vocabulary_term_SCS_PROTOCOL_VERSION_V8.setDescription(None) vocabulary_term_SCS_PROTOCOL_VERSION_V8.setLabel(None) vocabulary_term_SCS_PROTOCOL_VERSION_V8.setOrdinal(1) vocabulary_SCS_PROTOCOL_VERSION.addTerm(vocabulary_term_SCS_PROTOCOL_VERSION_V8) vocabulary_term_SCS_PROTOCOL_VERSION_V6 = tr.createNewVocabularyTerm('V6') vocabulary_term_SCS_PROTOCOL_VERSION_V6.setDescription(None) vocabulary_term_SCS_PROTOCOL_VERSION_V6.setLabel(None) vocabulary_term_SCS_PROTOCOL_VERSION_V6.setOrdinal(2) vocabulary_SCS_PROTOCOL_VERSION.addTerm(vocabulary_term_SCS_PROTOCOL_VERSION_V6) vocabulary_term_SCS_PROTOCOL_VERSION_V7 = tr.createNewVocabularyTerm('V7') vocabulary_term_SCS_PROTOCOL_VERSION_V7.setDescription(None) vocabulary_term_SCS_PROTOCOL_VERSION_V7.setLabel(None) vocabulary_term_SCS_PROTOCOL_VERSION_V7.setOrdinal(3) vocabulary_SCS_PROTOCOL_VERSION.addTerm(vocabulary_term_SCS_PROTOCOL_VERSION_V7) vocabulary_SCS_SOFTWARE_VERSION = tr.getOrCreateNewVocabulary('SCS_SOFTWARE_VERSION') vocabulary_SCS_SOFTWARE_VERSION.setDescription('Software version of the Sequencing PC attached to the GA') vocabulary_SCS_SOFTWARE_VERSION.setUrlTemplate(None) vocabulary_SCS_SOFTWARE_VERSION.setManagedInternally(False) vocabulary_SCS_SOFTWARE_VERSION.setInternalNamespace(False) vocabulary_SCS_SOFTWARE_VERSION.setChosenFromList(True) vocabulary_term_SCS_SOFTWARE_VERSION_HCS_1515 = tr.createNewVocabularyTerm('HCS_1.5.15') vocabulary_term_SCS_SOFTWARE_VERSION_HCS_1515.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_HCS_1515.setLabel('HCS 1.5.15/1.13.48') vocabulary_term_SCS_SOFTWARE_VERSION_HCS_1515.setOrdinal(1) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_HCS_1515) vocabulary_term_SCS_SOFTWARE_VERSION_HCS_145 = tr.createNewVocabularyTerm('HCS_1.4.5') vocabulary_term_SCS_SOFTWARE_VERSION_HCS_145.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_HCS_145.setLabel('HCS 1.4.5/RTA 1.12.4') vocabulary_term_SCS_SOFTWARE_VERSION_HCS_145.setOrdinal(2) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_HCS_145) vocabulary_term_SCS_SOFTWARE_VERSION_HCS_14 = tr.createNewVocabularyTerm('HCS_1.4') vocabulary_term_SCS_SOFTWARE_VERSION_HCS_14.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_HCS_14.setLabel('HCS 1.4/RTA 1.12') vocabulary_term_SCS_SOFTWARE_VERSION_HCS_14.setOrdinal(3) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_HCS_14) vocabulary_term_SCS_SOFTWARE_VERSION_210 = tr.createNewVocabularyTerm('2.10') vocabulary_term_SCS_SOFTWARE_VERSION_210.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_210.setLabel('2.10/RTA 1.13.48') vocabulary_term_SCS_SOFTWARE_VERSION_210.setOrdinal(4) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_210) vocabulary_term_SCS_SOFTWARE_VERSION_29 = tr.createNewVocabularyTerm('2.9') vocabulary_term_SCS_SOFTWARE_VERSION_29.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_29.setLabel('2.9/RTA2.9') vocabulary_term_SCS_SOFTWARE_VERSION_29.setOrdinal(5) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_29) vocabulary_term_SCS_SOFTWARE_VERSION_28 = tr.createNewVocabularyTerm('2.8') vocabulary_term_SCS_SOFTWARE_VERSION_28.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_28.setLabel('2.8/RTA 1.8') vocabulary_term_SCS_SOFTWARE_VERSION_28.setOrdinal(6) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_28) vocabulary_term_SCS_SOFTWARE_VERSION_26 = tr.createNewVocabularyTerm('2.6') vocabulary_term_SCS_SOFTWARE_VERSION_26.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_26.setLabel('2.6/RTA 1.6 (no longer in use)') vocabulary_term_SCS_SOFTWARE_VERSION_26.setOrdinal(7) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_26) vocabulary_term_SCS_SOFTWARE_VERSION_25 = tr.createNewVocabularyTerm('2.5') vocabulary_term_SCS_SOFTWARE_VERSION_25.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_25.setLabel('2.5 (no longer in use)') vocabulary_term_SCS_SOFTWARE_VERSION_25.setOrdinal(8) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_25) vocabulary_term_SCS_SOFTWARE_VERSION_24 = tr.createNewVocabularyTerm('2.4') vocabulary_term_SCS_SOFTWARE_VERSION_24.setDescription(None) vocabulary_term_SCS_SOFTWARE_VERSION_24.setLabel('2.4 (no longer in use)') vocabulary_term_SCS_SOFTWARE_VERSION_24.setOrdinal(9) vocabulary_SCS_SOFTWARE_VERSION.addTerm(vocabulary_term_SCS_SOFTWARE_VERSION_24) vocabulary_SEQUENCER = tr.getOrCreateNewVocabulary('SEQUENCER') vocabulary_SEQUENCER.setDescription('Which Sequencer was used?') vocabulary_SEQUENCER.setUrlTemplate(None) vocabulary_SEQUENCER.setManagedInternally(False) vocabulary_SEQUENCER.setInternalNamespace(False) vocabulary_SEQUENCER.setChosenFromList(True) vocabulary_term_SEQUENCER_HISEQ2500 = tr.createNewVocabularyTerm('HISEQ2500') vocabulary_term_SEQUENCER_HISEQ2500.setDescription(None) vocabulary_term_SEQUENCER_HISEQ2500.setLabel(None) vocabulary_term_SEQUENCER_HISEQ2500.setOrdinal(3) vocabulary_SEQUENCER.addTerm(vocabulary_term_SEQUENCER_HISEQ2500) vocabulary_term_SEQUENCER_HISEQ2000 = tr.createNewVocabularyTerm('HISEQ2000') vocabulary_term_SEQUENCER_HISEQ2000.setDescription(None) vocabulary_term_SEQUENCER_HISEQ2000.setLabel(None) vocabulary_term_SEQUENCER_HISEQ2000.setOrdinal(4) vocabulary_SEQUENCER.addTerm(vocabulary_term_SEQUENCER_HISEQ2000) vocabulary_SEQUENCING_APPLICATION = tr.getOrCreateNewVocabulary('SEQUENCING_APPLICATION') vocabulary_SEQUENCING_APPLICATION.setDescription('Type of experiment of the High Throughput Sequencing applications') vocabulary_SEQUENCING_APPLICATION.setUrlTemplate(None) vocabulary_SEQUENCING_APPLICATION.setManagedInternally(False) vocabulary_SEQUENCING_APPLICATION.setInternalNamespace(False) vocabulary_SEQUENCING_APPLICATION.setChosenFromList(True) vocabulary_term_SEQUENCING_APPLICATION_SMALL_RNA_SEQ = tr.createNewVocabularyTerm('SMALL_RNA_SEQ') vocabulary_term_SEQUENCING_APPLICATION_SMALL_RNA_SEQ.setDescription(None) vocabulary_term_SEQUENCING_APPLICATION_SMALL_RNA_SEQ.setLabel(None) vocabulary_term_SEQUENCING_APPLICATION_SMALL_RNA_SEQ.setOrdinal(1) vocabulary_SEQUENCING_APPLICATION.addTerm(vocabulary_term_SEQUENCING_APPLICATION_SMALL_RNA_SEQ) vocabulary_term_SEQUENCING_APPLICATION_RNA_SEQ = tr.createNewVocabularyTerm('RNA_SEQ') vocabulary_term_SEQUENCING_APPLICATION_RNA_SEQ.setDescription(None) vocabulary_term_SEQUENCING_APPLICATION_RNA_SEQ.setLabel(None) vocabulary_term_SEQUENCING_APPLICATION_RNA_SEQ.setOrdinal(2) vocabulary_SEQUENCING_APPLICATION.addTerm(vocabulary_term_SEQUENCING_APPLICATION_RNA_SEQ) vocabulary_term_SEQUENCING_APPLICATION_GENOMIC_DNA_SEQ = tr.createNewVocabularyTerm('GENOMIC_DNA_SEQ') vocabulary_term_SEQUENCING_APPLICATION_GENOMIC_DNA_SEQ.setDescription(None) vocabulary_term_SEQUENCING_APPLICATION_GENOMIC_DNA_SEQ.setLabel(None) vocabulary_term_SEQUENCING_APPLICATION_GENOMIC_DNA_SEQ.setOrdinal(3) vocabulary_SEQUENCING_APPLICATION.addTerm(vocabulary_term_SEQUENCING_APPLICATION_GENOMIC_DNA_SEQ) vocabulary_term_SEQUENCING_APPLICATION_CHIP_SEQ = tr.createNewVocabularyTerm('CHIP_SEQ') vocabulary_term_SEQUENCING_APPLICATION_CHIP_SEQ.setDescription(None) vocabulary_term_SEQUENCING_APPLICATION_CHIP_SEQ.setLabel(None) vocabulary_term_SEQUENCING_APPLICATION_CHIP_SEQ.setOrdinal(4) vocabulary_SEQUENCING_APPLICATION.addTerm(vocabulary_term_SEQUENCING_APPLICATION_CHIP_SEQ) exp_type_HT_SEQUENCING = tr.getOrCreateNewExperimentType('HT_SEQUENCING') exp_type_HT_SEQUENCING.setDescription('High Throughput Sequencing (e.g. Illumina HiSeq, Illumina GA)') samp_type_ILLUMINA_FLOW_CELL = tr.getOrCreateNewSampleType('ILLUMINA_FLOW_CELL') samp_type_ILLUMINA_FLOW_CELL.setDescription('Container of ILLUMINA_FLOW_LANES') samp_type_ILLUMINA_FLOW_CELL.setListable(True) samp_type_ILLUMINA_FLOW_CELL.setShowContainer(False) samp_type_ILLUMINA_FLOW_CELL.setShowParents(False) samp_type_ILLUMINA_FLOW_CELL.setSubcodeUnique(False) samp_type_ILLUMINA_FLOW_CELL.setAutoGeneratedCode(False) samp_type_ILLUMINA_FLOW_CELL.setGeneratedCodePrefix('FLOWCELL-') samp_type_ILLUMINA_FLOW_LANE = tr.getOrCreateNewSampleType('ILLUMINA_FLOW_LANE') samp_type_ILLUMINA_FLOW_LANE.setDescription('Child of LIBRARY or POOL') samp_type_ILLUMINA_FLOW_LANE.setListable(True) samp_type_ILLUMINA_FLOW_LANE.setShowContainer(True) samp_type_ILLUMINA_FLOW_LANE.setShowParents(True) samp_type_ILLUMINA_FLOW_LANE.setSubcodeUnique(False) samp_type_ILLUMINA_FLOW_LANE.setAutoGeneratedCode(False) samp_type_ILLUMINA_FLOW_LANE.setGeneratedCodePrefix('FLOWLANE-') samp_type_LIBRARY = tr.getOrCreateNewSampleType('LIBRARY') samp_type_LIBRARY.setDescription('Child of RAW and potential parent of POOL') samp_type_LIBRARY.setListable(True) samp_type_LIBRARY.setShowContainer(False) samp_type_LIBRARY.setShowParents(True) samp_type_LIBRARY.setSubcodeUnique(False) samp_type_LIBRARY.setAutoGeneratedCode(True) samp_type_LIBRARY.setGeneratedCodePrefix('QGF-LIBRARY-') samp_type_MASTER = tr.getOrCreateNewSampleType('MASTER') samp_type_MASTER.setDescription('Sample Type holding Master Data and a parent to RAW') samp_type_MASTER.setListable(True) samp_type_MASTER.setShowContainer(False) samp_type_MASTER.setShowParents(False) samp_type_MASTER.setSubcodeUnique(False) samp_type_MASTER.setAutoGeneratedCode(True) samp_type_MASTER.setGeneratedCodePrefix('QGF-MASTER-') samp_type_POOL = tr.getOrCreateNewSampleType('POOL') samp_type_POOL.setDescription('Child of several LIBRARY samples, used for multiplexing') samp_type_POOL.setListable(True) samp_type_POOL.setShowContainer(False) samp_type_POOL.setShowParents(True) samp_type_POOL.setSubcodeUnique(False) samp_type_POOL.setAutoGeneratedCode(True) samp_type_POOL.setGeneratedCodePrefix('QGF-POOL-') samp_type_RAW = tr.getOrCreateNewSampleType('RAW') samp_type_RAW.setDescription('Child of MASTER') samp_type_RAW.setListable(True) samp_type_RAW.setShowContainer(False) samp_type_RAW.setShowParents(True) samp_type_RAW.setSubcodeUnique(False) samp_type_RAW.setAutoGeneratedCode(True) samp_type_RAW.setGeneratedCodePrefix('QGF-RAW-') data_set_type_ALIGNMENT = tr.getOrCreateNewDataSetType('ALIGNMENT') data_set_type_ALIGNMENT.setDescription('Aligner ouput, ideally bam/sam') data_set_type_BASECALL_STATS = tr.getOrCreateNewDataSetType('BASECALL_STATS') data_set_type_BASECALL_STATS.setDescription('Base Call Statistics from the Illumina Pipeline (configureBclToFastq.pl)') data_set_type_BIGWIGGLE = tr.getOrCreateNewDataSetType('BIGWIGGLE') data_set_type_BIGWIGGLE.setDescription('Visualization') data_set_type_ELAND_ALIGNMENT = tr.getOrCreateNewDataSetType('ELAND_ALIGNMENT') data_set_type_ELAND_ALIGNMENT.setDescription('Illumina Eland Alignment Output') data_set_type_FASTQ_GZ = tr.getOrCreateNewDataSetType('FASTQ_GZ') data_set_type_FASTQ_GZ.setDescription('Gzipped Fastq file produced by Casava 1.8+') data_set_type_ILLUMINA_GA_OUTPUT = tr.getOrCreateNewDataSetType('ILLUMINA_GA_OUTPUT') data_set_type_ILLUMINA_GA_OUTPUT.setDescription('The directory structure as produced by the Illumina GA Pipeline (whatever Illumina spits out)\ ') data_set_type_ILLUMINA_HISEQ_OUTPUT = tr.getOrCreateNewDataSetType('ILLUMINA_HISEQ_OUTPUT') data_set_type_ILLUMINA_HISEQ_OUTPUT.setDescription('HiSeq2000 Output') data_set_type_MACS_OUTPUT = tr.getOrCreateNewDataSetType('MACS_OUTPUT') data_set_type_MACS_OUTPUT.setDescription('MACS Peak Caller output') data_set_type_QUALITY_JPGS = tr.getOrCreateNewDataSetType('QUALITY_JPGS') data_set_type_QUALITY_JPGS.setDescription('R generated Quality plots') data_set_type_QUALITY_PDFS = tr.getOrCreateNewDataSetType('QUALITY_PDFS') data_set_type_QUALITY_PDFS.setDescription('R generated pdfs showing quality data') data_set_type_QUALITY_SVG = tr.getOrCreateNewDataSetType('QUALITY_SVG') data_set_type_QUALITY_SVG.setDescription('R generated Quality plots') data_set_type_RUNINFO = tr.getOrCreateNewDataSetType('RUNINFO') data_set_type_RUNINFO.setDescription('Run statstics: Status.html and Status_Files folder') data_set_type_THUMBNAILS = tr.getOrCreateNewDataSetType('THUMBNAILS') data_set_type_THUMBNAILS.setDescription('Thumbnails provided by the Illumina software') data_set_type_TSV = tr.getOrCreateNewDataSetType('TSV') data_set_type_TSV.setDescription('Tab separated files') prop_type_AGILENT_KIT = tr.getOrCreateNewPropertyType('AGILENT_KIT', DataType.CONTROLLEDVOCABULARY) prop_type_AGILENT_KIT.setLabel('Agilent Kit') prop_type_AGILENT_KIT.setManagedInternally(False) prop_type_AGILENT_KIT.setInternalNamespace(False) prop_type_AGILENT_KIT.setVocabulary(vocabulary_AGILENT_KIT) prop_type_ALIGNMENT_SOFTWARE = tr.getOrCreateNewPropertyType('ALIGNMENT_SOFTWARE', DataType.CONTROLLEDVOCABULARY) prop_type_ALIGNMENT_SOFTWARE.setLabel('Alignment software') prop_type_ALIGNMENT_SOFTWARE.setManagedInternally(False) prop_type_ALIGNMENT_SOFTWARE.setInternalNamespace(False) prop_type_ALIGNMENT_SOFTWARE.setVocabulary(vocabulary_ALIGNMENT_SOFTWARE) prop_type_ANALYSIS_FINISHED = tr.getOrCreateNewPropertyType('ANALYSIS_FINISHED', DataType.TIMESTAMP) prop_type_ANALYSIS_FINISHED.setLabel('Analysis finished') prop_type_ANALYSIS_FINISHED.setManagedInternally(False) prop_type_ANALYSIS_FINISHED.setInternalNamespace(False) prop_type_BARCODE = tr.getOrCreateNewPropertyType('BARCODE', DataType.CONTROLLEDVOCABULARY) prop_type_BARCODE.setLabel('Index 1') prop_type_BARCODE.setManagedInternally(False) prop_type_BARCODE.setInternalNamespace(False) prop_type_BARCODE.setVocabulary(vocabulary_INDEX1) prop_type_BARCODES = tr.getOrCreateNewPropertyType('BARCODES', DataType.MULTILINE_VARCHAR) prop_type_BARCODES.setLabel('Adaptor and Barcodes') prop_type_BARCODES.setManagedInternally(False) prop_type_BARCODES.setInternalNamespace(False) prop_type_BARCODE_COMPLEXITY_CHECKER = tr.getOrCreateNewPropertyType('BARCODE_COMPLEXITY_CHECKER', DataType.MULTILINE_VARCHAR) prop_type_BARCODE_COMPLEXITY_CHECKER.setLabel('Barcode_Complexity_Checker') prop_type_BARCODE_COMPLEXITY_CHECKER.setManagedInternally(False) prop_type_BARCODE_COMPLEXITY_CHECKER.setInternalNamespace(False) prop_type_BARCODE_LENGTH = tr.getOrCreateNewPropertyType('BARCODE_LENGTH', DataType.INTEGER) prop_type_BARCODE_LENGTH.setLabel('Barcode Length (+ recognition site)') prop_type_BARCODE_LENGTH.setManagedInternally(False) prop_type_BARCODE_LENGTH.setInternalNamespace(False) prop_type_BAREBACKED = tr.getOrCreateNewPropertyType('BAREBACKED', DataType.BOOLEAN) prop_type_BAREBACKED.setLabel('Barebacked?') prop_type_BAREBACKED.setManagedInternally(False) prop_type_BAREBACKED.setInternalNamespace(False) prop_type_BASESCOVERED = tr.getOrCreateNewPropertyType('BASESCOVERED', DataType.INTEGER) prop_type_BASESCOVERED.setLabel('bases Covered') prop_type_BASESCOVERED.setManagedInternally(False) prop_type_BASESCOVERED.setInternalNamespace(False) prop_type_BIOLOGICAL_SAMPLE_ARRIVED = tr.getOrCreateNewPropertyType('BIOLOGICAL_SAMPLE_ARRIVED', DataType.TIMESTAMP) prop_type_BIOLOGICAL_SAMPLE_ARRIVED.setLabel('Arrival Date of Biological Sample') prop_type_BIOLOGICAL_SAMPLE_ARRIVED.setManagedInternally(False) prop_type_BIOLOGICAL_SAMPLE_ARRIVED.setInternalNamespace(False) prop_type_CALCLUATED_EXAMPLE = tr.getOrCreateNewPropertyType('CALCLUATED_EXAMPLE', DataType.REAL) prop_type_CALCLUATED_EXAMPLE.setLabel('Calcluated_example') prop_type_CALCLUATED_EXAMPLE.setManagedInternally(False) prop_type_CALCLUATED_EXAMPLE.setInternalNamespace(False) prop_type_CASAVA_VERSION = tr.getOrCreateNewPropertyType('CASAVA_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_CASAVA_VERSION.setLabel('Casava Version') prop_type_CASAVA_VERSION.setManagedInternally(False) prop_type_CASAVA_VERSION.setInternalNamespace(False) prop_type_CASAVA_VERSION.setVocabulary(vocabulary_CASAVA_VERSION) prop_type_CELL_PLASTICITY_SYSTEMSX = tr.getOrCreateNewPropertyType('CELL_PLASTICITY_SYSTEMSX', DataType.BOOLEAN) prop_type_CELL_PLASTICITY_SYSTEMSX.setLabel('Cell Plasticity (SystemsX)') prop_type_CELL_PLASTICITY_SYSTEMSX.setManagedInternally(False) prop_type_CELL_PLASTICITY_SYSTEMSX.setInternalNamespace(False) prop_type_CHROMCOUNT = tr.getOrCreateNewPropertyType('CHROMCOUNT', DataType.INTEGER) prop_type_CHROMCOUNT.setLabel('chrom Count') prop_type_CHROMCOUNT.setManagedInternally(False) prop_type_CHROMCOUNT.setInternalNamespace(False) prop_type_CLUSTER_GENERATION_KIT_VERSION = tr.getOrCreateNewPropertyType('CLUSTER_GENERATION_KIT_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_CLUSTER_GENERATION_KIT_VERSION.setLabel('CS Generation Kit Version') prop_type_CLUSTER_GENERATION_KIT_VERSION.setManagedInternally(False) prop_type_CLUSTER_GENERATION_KIT_VERSION.setInternalNamespace(False) prop_type_CLUSTER_GENERATION_KIT_VERSION.setVocabulary(vocabulary_CLUSTER_GENERATION_KIT_VERSION) prop_type_CLUSTER_STATION = tr.getOrCreateNewPropertyType('CLUSTER_STATION', DataType.CONTROLLEDVOCABULARY) prop_type_CLUSTER_STATION.setLabel('Cluster Station') prop_type_CLUSTER_STATION.setManagedInternally(False) prop_type_CLUSTER_STATION.setInternalNamespace(False) prop_type_CLUSTER_STATION.setVocabulary(vocabulary_CLUSTER_STATION) prop_type_CLUSTER_STATION_SOFTWARE_VERSION = tr.getOrCreateNewPropertyType('CLUSTER_STATION_SOFTWARE_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_CLUSTER_STATION_SOFTWARE_VERSION.setLabel('CS Software version') prop_type_CLUSTER_STATION_SOFTWARE_VERSION.setManagedInternally(False) prop_type_CLUSTER_STATION_SOFTWARE_VERSION.setInternalNamespace(False) prop_type_CLUSTER_STATION_SOFTWARE_VERSION.setVocabulary(vocabulary_CLUSTER_STATION_SOFTWARE_VERSION) prop_type_CONCENTRATION_FLOWLANE = tr.getOrCreateNewPropertyType('CONCENTRATION_FLOWLANE', DataType.REAL) prop_type_CONCENTRATION_FLOWLANE.setLabel('Concentration in flow lane [pM]') prop_type_CONCENTRATION_FLOWLANE.setManagedInternally(False) prop_type_CONCENTRATION_FLOWLANE.setInternalNamespace(False) prop_type_CONCENTRATION_ORIGINAL_ILLUMINA = tr.getOrCreateNewPropertyType('CONCENTRATION_ORIGINAL_ILLUMINA', DataType.REAL) prop_type_CONCENTRATION_ORIGINAL_ILLUMINA.setLabel(u'Concentration (original) [ng/\u03bcl]') prop_type_CONCENTRATION_ORIGINAL_ILLUMINA.setManagedInternally(False) prop_type_CONCENTRATION_ORIGINAL_ILLUMINA.setInternalNamespace(False) prop_type_CONCENTRATION_PREPARED_ILLUMINA = tr.getOrCreateNewPropertyType('CONCENTRATION_PREPARED_ILLUMINA', DataType.REAL) prop_type_CONCENTRATION_PREPARED_ILLUMINA.setLabel(u'Concentration (prepared) [ng/\u03bcl]') prop_type_CONCENTRATION_PREPARED_ILLUMINA.setManagedInternally(False) prop_type_CONCENTRATION_PREPARED_ILLUMINA.setInternalNamespace(False) prop_type_CONCENTRATION_TOTAL = tr.getOrCreateNewPropertyType('CONCENTRATION_TOTAL', DataType.INTEGER) prop_type_CONCENTRATION_TOTAL.setLabel(u'DNA concentration of library (ng/\u03bcl)') prop_type_CONCENTRATION_TOTAL.setManagedInternally(False) prop_type_CONCENTRATION_TOTAL.setInternalNamespace(False) prop_type_CONC_IF_SAMPLE_PROCESSED_DNA_LIBRARY = tr.getOrCreateNewPropertyType('CONC_IF_SAMPLE_PROCESSED_DNA_LIBRARY', DataType.INTEGER) prop_type_CONC_IF_SAMPLE_PROCESSED_DNA_LIBRARY.setLabel('Conc. if sample="proc. DNA library" (nM)') prop_type_CONC_IF_SAMPLE_PROCESSED_DNA_LIBRARY.setManagedInternally(False) prop_type_CONC_IF_SAMPLE_PROCESSED_DNA_LIBRARY.setInternalNamespace(False) prop_type_CONTACT_PERSON_EMAIL = tr.getOrCreateNewPropertyType('CONTACT_PERSON_EMAIL', DataType.VARCHAR) prop_type_CONTACT_PERSON_EMAIL.setLabel('Email of Contact Person') prop_type_CONTACT_PERSON_EMAIL.setManagedInternally(False) prop_type_CONTACT_PERSON_EMAIL.setInternalNamespace(False) prop_type_CONTACT_PERSON_NAME = tr.getOrCreateNewPropertyType('CONTACT_PERSON_NAME', DataType.VARCHAR) prop_type_CONTACT_PERSON_NAME.setLabel('Name of Contact Person') prop_type_CONTACT_PERSON_NAME.setManagedInternally(False) prop_type_CONTACT_PERSON_NAME.setInternalNamespace(False) prop_type_CONTROL_LANE = tr.getOrCreateNewPropertyType('CONTROL_LANE', DataType.CONTROLLEDVOCABULARY) prop_type_CONTROL_LANE.setLabel('Control Lane') prop_type_CONTROL_LANE.setManagedInternally(False) prop_type_CONTROL_LANE.setInternalNamespace(False) prop_type_CONTROL_LANE.setVocabulary(vocabulary_CONTROL_LANE) prop_type_CREATED_ON_CS = tr.getOrCreateNewPropertyType('CREATED_ON_CS', DataType.TIMESTAMP) prop_type_CREATED_ON_CS.setLabel('Clustering date') prop_type_CREATED_ON_CS.setManagedInternally(False) prop_type_CREATED_ON_CS.setInternalNamespace(False) prop_type_CS_PROTOCOL_VERSION = tr.getOrCreateNewPropertyType('CS_PROTOCOL_VERSION', DataType.VARCHAR) prop_type_CS_PROTOCOL_VERSION.setLabel('CS Protocol Version') prop_type_CS_PROTOCOL_VERSION.setManagedInternally(False) prop_type_CS_PROTOCOL_VERSION.setInternalNamespace(False) prop_type_CYCLES = tr.getOrCreateNewPropertyType('CYCLES', DataType.INTEGER) prop_type_CYCLES.setLabel('Number of Cycles') prop_type_CYCLES.setManagedInternally(False) prop_type_CYCLES.setInternalNamespace(False) prop_type_CYCLES_REQUESTED_BY_CUSTOMER = tr.getOrCreateNewPropertyType('CYCLES_REQUESTED_BY_CUSTOMER', DataType.CONTROLLEDVOCABULARY) prop_type_CYCLES_REQUESTED_BY_CUSTOMER.setLabel('Cycles') prop_type_CYCLES_REQUESTED_BY_CUSTOMER.setManagedInternally(False) prop_type_CYCLES_REQUESTED_BY_CUSTOMER.setInternalNamespace(False) prop_type_CYCLES_REQUESTED_BY_CUSTOMER.setVocabulary(vocabulary_CYCLES) prop_type_DATA_TRANSFERRED = tr.getOrCreateNewPropertyType('DATA_TRANSFERRED', DataType.TIMESTAMP) prop_type_DATA_TRANSFERRED.setLabel('Data transferred') prop_type_DATA_TRANSFERRED.setManagedInternally(False) prop_type_DATA_TRANSFERRED.setInternalNamespace(False) prop_type_DESCRIPTION = tr.getOrCreateNewPropertyType('DESCRIPTION', DataType.VARCHAR) prop_type_DESCRIPTION.setLabel('Description') prop_type_DESCRIPTION.setManagedInternally(False) prop_type_DESCRIPTION.setInternalNamespace(False) prop_type_DNA_CONCENTRATION_OF_LIBRARY = tr.getOrCreateNewPropertyType('DNA_CONCENTRATION_OF_LIBRARY', DataType.INTEGER) prop_type_DNA_CONCENTRATION_OF_LIBRARY.setLabel('DNA concentration of library (nM)') prop_type_DNA_CONCENTRATION_OF_LIBRARY.setManagedInternally(False) prop_type_DNA_CONCENTRATION_OF_LIBRARY.setInternalNamespace(False) prop_type_END_TYPE = tr.getOrCreateNewPropertyType('END_TYPE', DataType.CONTROLLEDVOCABULARY) prop_type_END_TYPE.setLabel('Paired End / Single Read') prop_type_END_TYPE.setManagedInternally(False) prop_type_END_TYPE.setInternalNamespace(False) prop_type_END_TYPE.setVocabulary(vocabulary_END_TYPE) prop_type_EXPERIMENT_DESIGN = tr.getOrCreateNewPropertyType('EXPERIMENT_DESIGN', DataType.CONTROLLEDVOCABULARY) prop_type_EXPERIMENT_DESIGN.setLabel('Experiment Design') prop_type_EXPERIMENT_DESIGN.setManagedInternally(False) prop_type_EXPERIMENT_DESIGN.setInternalNamespace(False) prop_type_EXPERIMENT_DESIGN.setVocabulary(vocabulary_EXPERIMENT_DESIGN) prop_type_EXTERNAL_SAMPLE_NAME = tr.getOrCreateNewPropertyType('EXTERNAL_SAMPLE_NAME', DataType.VARCHAR) prop_type_EXTERNAL_SAMPLE_NAME.setLabel('External Sample Name') prop_type_EXTERNAL_SAMPLE_NAME.setManagedInternally(False) prop_type_EXTERNAL_SAMPLE_NAME.setInternalNamespace(False) prop_type_FLOWCELLTYPE = tr.getOrCreateNewPropertyType('FLOWCELLTYPE', DataType.VARCHAR) prop_type_FLOWCELLTYPE.setLabel('Flow Cell Type') prop_type_FLOWCELLTYPE.setManagedInternally(False) prop_type_FLOWCELLTYPE.setInternalNamespace(False) prop_type_FLOW_CELL_SEQUENCED_ON = tr.getOrCreateNewPropertyType('FLOW_CELL_SEQUENCED_ON', DataType.TIMESTAMP) prop_type_FLOW_CELL_SEQUENCED_ON.setLabel('Sequencing date') prop_type_FLOW_CELL_SEQUENCED_ON.setManagedInternally(False) prop_type_FLOW_CELL_SEQUENCED_ON.setInternalNamespace(False) prop_type_FRAGMENT_SIZE_PREPARED_ILLUMINA = tr.getOrCreateNewPropertyType('FRAGMENT_SIZE_PREPARED_ILLUMINA', DataType.INTEGER) prop_type_FRAGMENT_SIZE_PREPARED_ILLUMINA.setLabel('Fragment Size (prepared) [base (pairs)]') prop_type_FRAGMENT_SIZE_PREPARED_ILLUMINA.setManagedInternally(False) prop_type_FRAGMENT_SIZE_PREPARED_ILLUMINA.setInternalNamespace(False) prop_type_ILLUMINA_PIPELINE_VERSION = tr.getOrCreateNewPropertyType('ILLUMINA_PIPELINE_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_ILLUMINA_PIPELINE_VERSION.setLabel('Pipeline Version') prop_type_ILLUMINA_PIPELINE_VERSION.setManagedInternally(False) prop_type_ILLUMINA_PIPELINE_VERSION.setInternalNamespace(False) prop_type_ILLUMINA_PIPELINE_VERSION.setVocabulary(vocabulary_PIPELINE_VERSION) prop_type_INDEX2 = tr.getOrCreateNewPropertyType('INDEX2', DataType.CONTROLLEDVOCABULARY) prop_type_INDEX2.setLabel('Index 2') prop_type_INDEX2.setManagedInternally(False) prop_type_INDEX2.setInternalNamespace(False) prop_type_INDEX2.setVocabulary(vocabulary_INDEX2) prop_type_INDEXREAD = tr.getOrCreateNewPropertyType('INDEXREAD', DataType.INTEGER) prop_type_INDEXREAD.setLabel('Length of Index Read1') prop_type_INDEXREAD.setManagedInternally(False) prop_type_INDEXREAD.setInternalNamespace(False) prop_type_INDEXREAD2 = tr.getOrCreateNewPropertyType('INDEXREAD2', DataType.INTEGER) prop_type_INDEXREAD2.setLabel('Length of Index Read2') prop_type_INDEXREAD2.setManagedInternally(False) prop_type_INDEXREAD2.setInternalNamespace(False) prop_type_INVOICE = tr.getOrCreateNewPropertyType('INVOICE', DataType.BOOLEAN) prop_type_INVOICE.setLabel('Invoice sent?') prop_type_INVOICE.setManagedInternally(False) prop_type_INVOICE.setInternalNamespace(False) prop_type_ISCOMPRESSED = tr.getOrCreateNewPropertyType('ISCOMPRESSED', DataType.BOOLEAN) prop_type_ISCOMPRESSED.setLabel('Is Compressed') prop_type_ISCOMPRESSED.setManagedInternally(False) prop_type_ISCOMPRESSED.setInternalNamespace(False) prop_type_ISSUED_COMMAND = tr.getOrCreateNewPropertyType('ISSUED_COMMAND', DataType.MULTILINE_VARCHAR) prop_type_ISSUED_COMMAND.setLabel('Issued Command') prop_type_ISSUED_COMMAND.setManagedInternally(False) prop_type_ISSUED_COMMAND.setInternalNamespace(False) prop_type_ISSWAPPED = tr.getOrCreateNewPropertyType('ISSWAPPED', DataType.INTEGER) prop_type_ISSWAPPED.setLabel('Is byte swapped') prop_type_ISSWAPPED.setManagedInternally(False) prop_type_ISSWAPPED.setInternalNamespace(False) prop_type_KIT = tr.getOrCreateNewPropertyType('KIT', DataType.CONTROLLEDVOCABULARY) prop_type_KIT.setLabel('Library preparation kit') prop_type_KIT.setManagedInternally(False) prop_type_KIT.setInternalNamespace(False) prop_type_KIT.setVocabulary(vocabulary_KIT) prop_type_KIT_ARRIVED = tr.getOrCreateNewPropertyType('KIT_ARRIVED', DataType.TIMESTAMP) prop_type_KIT_ARRIVED.setLabel('Kit arrived') prop_type_KIT_ARRIVED.setManagedInternally(False) prop_type_KIT_ARRIVED.setInternalNamespace(False) prop_type_KIT_PREPARED = tr.getOrCreateNewPropertyType('KIT_PREPARED', DataType.TIMESTAMP) prop_type_KIT_PREPARED.setLabel('Sample processed') prop_type_KIT_PREPARED.setManagedInternally(False) prop_type_KIT_PREPARED.setInternalNamespace(False) prop_type_LANECOUNT = tr.getOrCreateNewPropertyType('LANECOUNT', DataType.INTEGER) prop_type_LANECOUNT.setLabel('Lane Count') prop_type_LANECOUNT.setManagedInternally(False) prop_type_LANECOUNT.setInternalNamespace(False) prop_type_LIBRARY_PROCESSING_FAILED = tr.getOrCreateNewPropertyType('LIBRARY_PROCESSING_FAILED', DataType.BOOLEAN) prop_type_LIBRARY_PROCESSING_FAILED.setLabel('Library processing failed') prop_type_LIBRARY_PROCESSING_FAILED.setManagedInternally(False) prop_type_LIBRARY_PROCESSING_FAILED.setInternalNamespace(False) prop_type_LIBRARY_PROCESSING_POSSIBLE = tr.getOrCreateNewPropertyType('LIBRARY_PROCESSING_POSSIBLE', DataType.BOOLEAN) prop_type_LIBRARY_PROCESSING_POSSIBLE.setLabel('Library Processing possible') prop_type_LIBRARY_PROCESSING_POSSIBLE.setManagedInternally(False) prop_type_LIBRARY_PROCESSING_POSSIBLE.setInternalNamespace(False) prop_type_LIBRARY_PROCESSING_SUCCESSFUL = tr.getOrCreateNewPropertyType('LIBRARY_PROCESSING_SUCCESSFUL', DataType.BOOLEAN) prop_type_LIBRARY_PROCESSING_SUCCESSFUL.setLabel('Library processing successful') prop_type_LIBRARY_PROCESSING_SUCCESSFUL.setManagedInternally(False) prop_type_LIBRARY_PROCESSING_SUCCESSFUL.setInternalNamespace(False) prop_type_LOT = tr.getOrCreateNewPropertyType('LOT', DataType.INTEGER) prop_type_LOT.setLabel('Kit Lot #') prop_type_LOT.setManagedInternally(False) prop_type_LOT.setInternalNamespace(False) prop_type_MACS_VERSION = tr.getOrCreateNewPropertyType('MACS_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_MACS_VERSION.setLabel('MACS VERSION') prop_type_MACS_VERSION.setManagedInternally(False) prop_type_MACS_VERSION.setInternalNamespace(False) prop_type_MACS_VERSION.setVocabulary(vocabulary_MACS_VERSION) prop_type_MAPPED_READS = tr.getOrCreateNewPropertyType('MAPPED_READS', DataType.INTEGER) prop_type_MAPPED_READS.setLabel('Mapped reads') prop_type_MAPPED_READS.setManagedInternally(False) prop_type_MAPPED_READS.setInternalNamespace(False) prop_type_MAX = tr.getOrCreateNewPropertyType('MAX', DataType.REAL) prop_type_MAX.setLabel('Maximum') prop_type_MAX.setManagedInternally(False) prop_type_MAX.setInternalNamespace(False) prop_type_MEAN = tr.getOrCreateNewPropertyType('MEAN', DataType.REAL) prop_type_MEAN.setLabel('Mean') prop_type_MEAN.setManagedInternally(False) prop_type_MEAN.setInternalNamespace(False) prop_type_MIN = tr.getOrCreateNewPropertyType('MIN', DataType.REAL) prop_type_MIN.setLabel('Minimum') prop_type_MIN.setManagedInternally(False) prop_type_MIN.setInternalNamespace(False) prop_type_MISMATCH_IN_INDEX = tr.getOrCreateNewPropertyType('MISMATCH_IN_INDEX', DataType.CONTROLLEDVOCABULARY) prop_type_MISMATCH_IN_INDEX.setLabel('Mismatch in Index') prop_type_MISMATCH_IN_INDEX.setManagedInternally(False) prop_type_MISMATCH_IN_INDEX.setInternalNamespace(False) prop_type_MISMATCH_IN_INDEX.setVocabulary(vocabulary_MISMATCH_IN_INDEX) prop_type_NANO_DROP = tr.getOrCreateNewPropertyType('NANO_DROP', DataType.CONTROLLEDVOCABULARY) prop_type_NANO_DROP.setLabel('Nano Drop') prop_type_NANO_DROP.setManagedInternally(False) prop_type_NANO_DROP.setInternalNamespace(False) prop_type_NANO_DROP.setVocabulary(vocabulary_NANO_DROP) prop_type_NCBI_ORGANISM_TAXONOMY = tr.getOrCreateNewPropertyType('NCBI_ORGANISM_TAXONOMY', DataType.CONTROLLEDVOCABULARY) prop_type_NCBI_ORGANISM_TAXONOMY.setLabel('Organism (NCBI Taxonomy)') prop_type_NCBI_ORGANISM_TAXONOMY.setManagedInternally(False) prop_type_NCBI_ORGANISM_TAXONOMY.setInternalNamespace(False) prop_type_NCBI_ORGANISM_TAXONOMY.setVocabulary(vocabulary_NCBI_TAXONOMY) prop_type_NM_DNA = tr.getOrCreateNewPropertyType('NM_DNA', DataType.REAL) prop_type_NM_DNA.setLabel('Calculated DNA concentration of library (nM)') prop_type_NM_DNA.setManagedInternally(False) prop_type_NM_DNA.setInternalNamespace(False) prop_type_NOTES = tr.getOrCreateNewPropertyType('NOTES', DataType.MULTILINE_VARCHAR) prop_type_NOTES.setLabel('Notes') prop_type_NOTES.setManagedInternally(False) prop_type_NOTES.setInternalNamespace(False) prop_type_NOTES_CUSTOMER = tr.getOrCreateNewPropertyType('NOTES_CUSTOMER', DataType.MULTILINE_VARCHAR) prop_type_NOTES_CUSTOMER.setLabel('Notes Customer') prop_type_NOTES_CUSTOMER.setManagedInternally(False) prop_type_NOTES_CUSTOMER.setInternalNamespace(False) prop_type_NUMBER_OF_ATTACHMENTS = tr.getOrCreateNewPropertyType('NUMBER_OF_ATTACHMENTS', DataType.INTEGER) prop_type_NUMBER_OF_ATTACHMENTS.setLabel('Number of Attachments') prop_type_NUMBER_OF_ATTACHMENTS.setManagedInternally(False) prop_type_NUMBER_OF_ATTACHMENTS.setInternalNamespace(False) prop_type_ORGANISM_FREE = tr.getOrCreateNewPropertyType('ORGANISM_FREE', DataType.VARCHAR) prop_type_ORGANISM_FREE.setLabel('Organism (if OTHER)') prop_type_ORGANISM_FREE.setManagedInternally(False) prop_type_ORGANISM_FREE.setInternalNamespace(False) prop_type_OTRS = tr.getOrCreateNewPropertyType('OTRS', DataType.INTEGER) prop_type_OTRS.setLabel('OTRS ID #') prop_type_OTRS.setManagedInternally(False) prop_type_OTRS.setInternalNamespace(False) prop_type_PAIRED_END_KIT = tr.getOrCreateNewPropertyType('PAIRED_END_KIT', DataType.VARCHAR) prop_type_PAIRED_END_KIT.setLabel('Paired End Kit') prop_type_PAIRED_END_KIT.setManagedInternally(False) prop_type_PAIRED_END_KIT.setInternalNamespace(False) prop_type_PERCENTAGE_ONE_MISMATCH_READS_INDEX = tr.getOrCreateNewPropertyType('PERCENTAGE_ONE_MISMATCH_READS_INDEX', DataType.REAL) prop_type_PERCENTAGE_ONE_MISMATCH_READS_INDEX.setLabel('% One Mismatch Reads (Index)') prop_type_PERCENTAGE_ONE_MISMATCH_READS_INDEX.setManagedInternally(False) prop_type_PERCENTAGE_ONE_MISMATCH_READS_INDEX.setInternalNamespace(False) prop_type_PERCENTAGE_PASSED_FILTERING = tr.getOrCreateNewPropertyType('PERCENTAGE_PASSED_FILTERING', DataType.REAL) prop_type_PERCENTAGE_PASSED_FILTERING.setLabel('% Passes Illumina Filtering (PF)') prop_type_PERCENTAGE_PASSED_FILTERING.setManagedInternally(False) prop_type_PERCENTAGE_PASSED_FILTERING.setInternalNamespace(False) prop_type_PERCENTAGE_PERFECT_INDEX_READS = tr.getOrCreateNewPropertyType('PERCENTAGE_PERFECT_INDEX_READS', DataType.REAL) prop_type_PERCENTAGE_PERFECT_INDEX_READS.setLabel('% Perfect Index Reads') prop_type_PERCENTAGE_PERFECT_INDEX_READS.setManagedInternally(False) prop_type_PERCENTAGE_PERFECT_INDEX_READS.setInternalNamespace(False) prop_type_PERCENTAGE_RAW_CLUSTERS_PER_LANE = tr.getOrCreateNewPropertyType('PERCENTAGE_RAW_CLUSTERS_PER_LANE', DataType.REAL) prop_type_PERCENTAGE_RAW_CLUSTERS_PER_LANE.setLabel('% of raw clusters per lane') prop_type_PERCENTAGE_RAW_CLUSTERS_PER_LANE.setManagedInternally(False) prop_type_PERCENTAGE_RAW_CLUSTERS_PER_LANE.setInternalNamespace(False) prop_type_PREPARED_BY = tr.getOrCreateNewPropertyType('PREPARED_BY', DataType.VARCHAR) prop_type_PREPARED_BY.setLabel('Prepared by') prop_type_PREPARED_BY.setManagedInternally(False) prop_type_PREPARED_BY.setInternalNamespace(False) prop_type_PRIMARYDATASIZE = tr.getOrCreateNewPropertyType('PRIMARYDATASIZE', DataType.INTEGER) prop_type_PRIMARYDATASIZE.setLabel('primary Data Size') prop_type_PRIMARYDATASIZE.setManagedInternally(False) prop_type_PRIMARYDATASIZE.setInternalNamespace(False) prop_type_PRIMARYINDEXSIZE = tr.getOrCreateNewPropertyType('PRIMARYINDEXSIZE', DataType.INTEGER) prop_type_PRIMARYINDEXSIZE.setLabel('primary Index Size') prop_type_PRIMARYINDEXSIZE.setManagedInternally(False) prop_type_PRIMARYINDEXSIZE.setInternalNamespace(False) prop_type_PRINCIPAL_INVESTIGATOR_EMAIL = tr.getOrCreateNewPropertyType('PRINCIPAL_INVESTIGATOR_EMAIL', DataType.VARCHAR) prop_type_PRINCIPAL_INVESTIGATOR_EMAIL.setLabel('Email of Principal Investigator') prop_type_PRINCIPAL_INVESTIGATOR_EMAIL.setManagedInternally(False) prop_type_PRINCIPAL_INVESTIGATOR_EMAIL.setInternalNamespace(False) prop_type_PRINCIPAL_INVESTIGATOR_NAME = tr.getOrCreateNewPropertyType('PRINCIPAL_INVESTIGATOR_NAME', DataType.VARCHAR) prop_type_PRINCIPAL_INVESTIGATOR_NAME.setLabel('Name of Principal Investigator') prop_type_PRINCIPAL_INVESTIGATOR_NAME.setManagedInternally(False) prop_type_PRINCIPAL_INVESTIGATOR_NAME.setInternalNamespace(False) prop_type_REQUIRED_LANES = tr.getOrCreateNewPropertyType('REQUIRED_LANES', DataType.CONTROLLEDVOCABULARY) prop_type_REQUIRED_LANES.setLabel('Number of Required Lanes') prop_type_REQUIRED_LANES.setManagedInternally(False) prop_type_REQUIRED_LANES.setInternalNamespace(False) prop_type_REQUIRED_LANES.setVocabulary(vocabulary_REQUIRED_LANES) prop_type_SAMPLE_CHARACTERISTICS = tr.getOrCreateNewPropertyType('SAMPLE_CHARACTERISTICS', DataType.MULTILINE_VARCHAR) prop_type_SAMPLE_CHARACTERISTICS.setLabel('Sample characteristics') prop_type_SAMPLE_CHARACTERISTICS.setManagedInternally(False) prop_type_SAMPLE_CHARACTERISTICS.setInternalNamespace(False) prop_type_SAMPLE_DATA_PROCESSING = tr.getOrCreateNewPropertyType('SAMPLE_DATA_PROCESSING', DataType.MULTILINE_VARCHAR) prop_type_SAMPLE_DATA_PROCESSING.setLabel('Sample Data Processing') prop_type_SAMPLE_DATA_PROCESSING.setManagedInternally(False) prop_type_SAMPLE_DATA_PROCESSING.setInternalNamespace(False) prop_type_SAMPLE_EXTRACT_PROTOCOL = tr.getOrCreateNewPropertyType('SAMPLE_EXTRACT_PROTOCOL', DataType.MULTILINE_VARCHAR) prop_type_SAMPLE_EXTRACT_PROTOCOL.setLabel('Sample Extract Protocol') prop_type_SAMPLE_EXTRACT_PROTOCOL.setManagedInternally(False) prop_type_SAMPLE_EXTRACT_PROTOCOL.setInternalNamespace(False) prop_type_SAMPLE_ID = tr.getOrCreateNewPropertyType('SAMPLE_ID', DataType.VARCHAR) prop_type_SAMPLE_ID.setLabel('Sample ID') prop_type_SAMPLE_ID.setManagedInternally(False) prop_type_SAMPLE_ID.setInternalNamespace(False) prop_type_SAMPLE_KIND = tr.getOrCreateNewPropertyType('SAMPLE_KIND', DataType.CONTROLLEDVOCABULARY) prop_type_SAMPLE_KIND.setLabel('Sample Kind') prop_type_SAMPLE_KIND.setManagedInternally(False) prop_type_SAMPLE_KIND.setInternalNamespace(False) prop_type_SAMPLE_KIND.setVocabulary(vocabulary_SAMPLE_TYPE) prop_type_SAMPLE_LIBRARY_SELECTION = tr.getOrCreateNewPropertyType('SAMPLE_LIBRARY_SELECTION', DataType.CONTROLLEDVOCABULARY) prop_type_SAMPLE_LIBRARY_SELECTION.setLabel('Sample Library Selection') prop_type_SAMPLE_LIBRARY_SELECTION.setManagedInternally(False) prop_type_SAMPLE_LIBRARY_SELECTION.setInternalNamespace(False) prop_type_SAMPLE_LIBRARY_SELECTION.setVocabulary(vocabulary_SAMPLE_LIBRARY_SELECTION) prop_type_SAMPLE_LIBRARY_SOURCE = tr.getOrCreateNewPropertyType('SAMPLE_LIBRARY_SOURCE', DataType.CONTROLLEDVOCABULARY) prop_type_SAMPLE_LIBRARY_SOURCE.setLabel('Sample Library Source') prop_type_SAMPLE_LIBRARY_SOURCE.setManagedInternally(False) prop_type_SAMPLE_LIBRARY_SOURCE.setInternalNamespace(False) prop_type_SAMPLE_LIBRARY_SOURCE.setVocabulary(vocabulary_SAMPLE_LIBRARY_SOURCE_VOC) prop_type_SAMPLE_LIBRARY_STRATEGY = tr.getOrCreateNewPropertyType('SAMPLE_LIBRARY_STRATEGY', DataType.CONTROLLEDVOCABULARY) prop_type_SAMPLE_LIBRARY_STRATEGY.setLabel('Sample Library Strategy') prop_type_SAMPLE_LIBRARY_STRATEGY.setManagedInternally(False) prop_type_SAMPLE_LIBRARY_STRATEGY.setInternalNamespace(False) prop_type_SAMPLE_LIBRARY_STRATEGY.setVocabulary(vocabulary_SAMPLE_LIBRARY_STRATEGY) prop_type_SAMPLE_MOLECULE = tr.getOrCreateNewPropertyType('SAMPLE_MOLECULE', DataType.CONTROLLEDVOCABULARY) prop_type_SAMPLE_MOLECULE.setLabel('Sample molecule') prop_type_SAMPLE_MOLECULE.setManagedInternally(False) prop_type_SAMPLE_MOLECULE.setInternalNamespace(False) prop_type_SAMPLE_MOLECULE.setVocabulary(vocabulary_SAMPLE_MOLECULE) prop_type_SAMPLE_SOURCE_NAME = tr.getOrCreateNewPropertyType('SAMPLE_SOURCE_NAME', DataType.VARCHAR) prop_type_SAMPLE_SOURCE_NAME.setLabel('Sample Source Name') prop_type_SAMPLE_SOURCE_NAME.setManagedInternally(False) prop_type_SAMPLE_SOURCE_NAME.setInternalNamespace(False) prop_type_SAMTOOLS_FLAGSTAT = tr.getOrCreateNewPropertyType('SAMTOOLS_FLAGSTAT', DataType.MULTILINE_VARCHAR) prop_type_SAMTOOLS_FLAGSTAT.setLabel('Samtools Flagstat Output') prop_type_SAMTOOLS_FLAGSTAT.setManagedInternally(False) prop_type_SAMTOOLS_FLAGSTAT.setInternalNamespace(False) prop_type_SBS_KIT = tr.getOrCreateNewPropertyType('SBS_KIT', DataType.VARCHAR) prop_type_SBS_KIT.setLabel('SBS Kit') prop_type_SBS_KIT.setManagedInternally(False) prop_type_SBS_KIT.setInternalNamespace(False) prop_type_SBS_SEQUENCING_KIT_VERSION = tr.getOrCreateNewPropertyType('SBS_SEQUENCING_KIT_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_SBS_SEQUENCING_KIT_VERSION.setLabel('SBS Sequencing Kit Version') prop_type_SBS_SEQUENCING_KIT_VERSION.setManagedInternally(False) prop_type_SBS_SEQUENCING_KIT_VERSION.setInternalNamespace(False) prop_type_SBS_SEQUENCING_KIT_VERSION.setVocabulary(vocabulary_SBS_SEQUENCING_KIT_VERSION) prop_type_SCRIPT_TYPE = tr.getOrCreateNewPropertyType('SCRIPT_TYPE', DataType.REAL) prop_type_SCRIPT_TYPE.setLabel('Script Type') prop_type_SCRIPT_TYPE.setManagedInternally(False) prop_type_SCRIPT_TYPE.setInternalNamespace(False) prop_type_SCS_PROTOCOL_VERSION = tr.getOrCreateNewPropertyType('SCS_PROTOCOL_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_SCS_PROTOCOL_VERSION.setLabel('SCS Protocol Version') prop_type_SCS_PROTOCOL_VERSION.setManagedInternally(False) prop_type_SCS_PROTOCOL_VERSION.setInternalNamespace(False) prop_type_SCS_PROTOCOL_VERSION.setVocabulary(vocabulary_SCS_PROTOCOL_VERSION) prop_type_SCS_SOFTWARE_VERSION = tr.getOrCreateNewPropertyType('SCS_SOFTWARE_VERSION', DataType.CONTROLLEDVOCABULARY) prop_type_SCS_SOFTWARE_VERSION.setLabel('SCS Software Version') prop_type_SCS_SOFTWARE_VERSION.setManagedInternally(False) prop_type_SCS_SOFTWARE_VERSION.setInternalNamespace(False) prop_type_SCS_SOFTWARE_VERSION.setVocabulary(vocabulary_SCS_SOFTWARE_VERSION) prop_type_SEQUENCER = tr.getOrCreateNewPropertyType('SEQUENCER', DataType.CONTROLLEDVOCABULARY) prop_type_SEQUENCER.setLabel('Sequencer') prop_type_SEQUENCER.setManagedInternally(False) prop_type_SEQUENCER.setInternalNamespace(False) prop_type_SEQUENCER.setVocabulary(vocabulary_SEQUENCER) prop_type_SEQUENCER_FINISHED = tr.getOrCreateNewPropertyType('SEQUENCER_FINISHED', DataType.TIMESTAMP) prop_type_SEQUENCER_FINISHED.setLabel('Sequencer finished') prop_type_SEQUENCER_FINISHED.setManagedInternally(False) prop_type_SEQUENCER_FINISHED.setInternalNamespace(False) prop_type_SEQUENCING_APPLICATION = tr.getOrCreateNewPropertyType('SEQUENCING_APPLICATION', DataType.CONTROLLEDVOCABULARY) prop_type_SEQUENCING_APPLICATION.setLabel('Sequencing Application') prop_type_SEQUENCING_APPLICATION.setManagedInternally(False) prop_type_SEQUENCING_APPLICATION.setInternalNamespace(False) prop_type_SEQUENCING_APPLICATION.setVocabulary(vocabulary_SEQUENCING_APPLICATION) prop_type_STARTING_AMOUNT_OF_SAMPLE_IN_NG = tr.getOrCreateNewPropertyType('STARTING_AMOUNT_OF_SAMPLE_IN_NG', DataType.REAL) prop_type_STARTING_AMOUNT_OF_SAMPLE_IN_NG.setLabel('Starting amount of sample (ng)') prop_type_STARTING_AMOUNT_OF_SAMPLE_IN_NG.setManagedInternally(False) prop_type_STARTING_AMOUNT_OF_SAMPLE_IN_NG.setInternalNamespace(False) prop_type_STD = tr.getOrCreateNewPropertyType('STD', DataType.REAL) prop_type_STD.setLabel('Standard deviation') prop_type_STD.setManagedInternally(False) prop_type_STD.setInternalNamespace(False) prop_type_SURFACECOUNT = tr.getOrCreateNewPropertyType('SURFACECOUNT', DataType.INTEGER) prop_type_SURFACECOUNT.setLabel('Surface Count') prop_type_SURFACECOUNT.setManagedInternally(False) prop_type_SURFACECOUNT.setInternalNamespace(False) prop_type_SWATHCOUNT = tr.getOrCreateNewPropertyType('SWATHCOUNT', DataType.INTEGER) prop_type_SWATHCOUNT.setLabel('Swath Count') prop_type_SWATHCOUNT.setManagedInternally(False) prop_type_SWATHCOUNT.setInternalNamespace(False) prop_type_TILECOUNT = tr.getOrCreateNewPropertyType('TILECOUNT', DataType.INTEGER) prop_type_TILECOUNT.setLabel('Tile Count') prop_type_TILECOUNT.setManagedInternally(False) prop_type_TILECOUNT.setInternalNamespace(False) prop_type_TOTAL_READS = tr.getOrCreateNewPropertyType('TOTAL_READS', DataType.INTEGER) prop_type_TOTAL_READS.setLabel('Total reads') prop_type_TOTAL_READS.setManagedInternally(False) prop_type_TOTAL_READS.setInternalNamespace(False) prop_type_UL_DNA = tr.getOrCreateNewPropertyType('UL_DNA', DataType.REAL) prop_type_UL_DNA.setLabel('Calculated ul DNA for 2nM stock') prop_type_UL_DNA.setManagedInternally(False) prop_type_UL_DNA.setInternalNamespace(False) prop_type_UL_EB = tr.getOrCreateNewPropertyType('UL_EB', DataType.REAL) prop_type_UL_EB.setLabel('Calculated ul EB for 2nM stock ') prop_type_UL_EB.setManagedInternally(False) prop_type_UL_EB.setInternalNamespace(False) prop_type_UL_STOCK = tr.getOrCreateNewPropertyType('UL_STOCK', DataType.INTEGER) prop_type_UL_STOCK.setLabel('ul of 2nM stock') prop_type_UL_STOCK.setManagedInternally(False) prop_type_UL_STOCK.setInternalNamespace(False) prop_type_UNIQUE_BARCODES = tr.getOrCreateNewPropertyType('UNIQUE_BARCODES', DataType.VARCHAR) prop_type_UNIQUE_BARCODES.setLabel('Unique Barcodes in Pool?') prop_type_UNIQUE_BARCODES.setManagedInternally(False) prop_type_UNIQUE_BARCODES.setInternalNamespace(False) prop_type_VERSION = tr.getOrCreateNewPropertyType('VERSION', DataType.VARCHAR) prop_type_VERSION.setLabel('Version') prop_type_VERSION.setManagedInternally(False) prop_type_VERSION.setInternalNamespace(False) prop_type_YIELD_MBASES = tr.getOrCreateNewPropertyType('YIELD_MBASES', DataType.INTEGER) prop_type_YIELD_MBASES.setLabel('Yield(Mbases)') prop_type_YIELD_MBASES.setManagedInternally(False) prop_type_YIELD_MBASES.setInternalNamespace(False) prop_type_ZOOMLEVELS = tr.getOrCreateNewPropertyType('ZOOMLEVELS', DataType.INTEGER) prop_type_ZOOMLEVELS.setLabel('zoom Levels') prop_type_ZOOMLEVELS.setManagedInternally(False) prop_type_ZOOMLEVELS.setInternalNamespace(False) assignment_DATA_SET_ALIGNMENT_ALIGNMENT_SOFTWARE = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_ALIGNMENT_SOFTWARE) assignment_DATA_SET_ALIGNMENT_ALIGNMENT_SOFTWARE.setMandatory(False) assignment_DATA_SET_ALIGNMENT_ALIGNMENT_SOFTWARE.setSection(None) assignment_DATA_SET_ALIGNMENT_ALIGNMENT_SOFTWARE.setPositionInForms(3) assignment_DATA_SET_ALIGNMENT_VERSION = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_VERSION) assignment_DATA_SET_ALIGNMENT_VERSION.setMandatory(False) assignment_DATA_SET_ALIGNMENT_VERSION.setSection(None) assignment_DATA_SET_ALIGNMENT_VERSION.setPositionInForms(4) assignment_DATA_SET_ALIGNMENT_NOTES = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_NOTES) assignment_DATA_SET_ALIGNMENT_NOTES.setMandatory(False) assignment_DATA_SET_ALIGNMENT_NOTES.setSection(None) assignment_DATA_SET_ALIGNMENT_NOTES.setPositionInForms(5) assignment_DATA_SET_ALIGNMENT_SAMTOOLS_FLAGSTAT = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_SAMTOOLS_FLAGSTAT) assignment_DATA_SET_ALIGNMENT_SAMTOOLS_FLAGSTAT.setMandatory(False) assignment_DATA_SET_ALIGNMENT_SAMTOOLS_FLAGSTAT.setSection(None) assignment_DATA_SET_ALIGNMENT_SAMTOOLS_FLAGSTAT.setPositionInForms(6) assignment_DATA_SET_ALIGNMENT_MAPPED_READS = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_MAPPED_READS) assignment_DATA_SET_ALIGNMENT_MAPPED_READS.setMandatory(False) assignment_DATA_SET_ALIGNMENT_MAPPED_READS.setSection(None) assignment_DATA_SET_ALIGNMENT_MAPPED_READS.setPositionInForms(7) assignment_DATA_SET_ALIGNMENT_TOTAL_READS = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_TOTAL_READS) assignment_DATA_SET_ALIGNMENT_TOTAL_READS.setMandatory(False) assignment_DATA_SET_ALIGNMENT_TOTAL_READS.setSection(None) assignment_DATA_SET_ALIGNMENT_TOTAL_READS.setPositionInForms(8) assignment_DATA_SET_ALIGNMENT_ISSUED_COMMAND = tr.assignPropertyType(data_set_type_ALIGNMENT, prop_type_ISSUED_COMMAND) assignment_DATA_SET_ALIGNMENT_ISSUED_COMMAND.setMandatory(False) assignment_DATA_SET_ALIGNMENT_ISSUED_COMMAND.setSection(None) assignment_DATA_SET_ALIGNMENT_ISSUED_COMMAND.setPositionInForms(9) assignment_DATA_SET_BASECALL_STATS_MISMATCH_IN_INDEX = tr.assignPropertyType(data_set_type_BASECALL_STATS, prop_type_MISMATCH_IN_INDEX) assignment_DATA_SET_BASECALL_STATS_MISMATCH_IN_INDEX.setMandatory(False) assignment_DATA_SET_BASECALL_STATS_MISMATCH_IN_INDEX.setSection(None) assignment_DATA_SET_BASECALL_STATS_MISMATCH_IN_INDEX.setPositionInForms(3) assignment_DATA_SET_BIGWIGGLE_NOTES = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_NOTES) assignment_DATA_SET_BIGWIGGLE_NOTES.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_NOTES.setSection(None) assignment_DATA_SET_BIGWIGGLE_NOTES.setPositionInForms(3) assignment_DATA_SET_BIGWIGGLE_VERSION = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_VERSION) assignment_DATA_SET_BIGWIGGLE_VERSION.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_VERSION.setSection(None) assignment_DATA_SET_BIGWIGGLE_VERSION.setPositionInForms(4) assignment_DATA_SET_BIGWIGGLE_ISCOMPRESSED = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_ISCOMPRESSED) assignment_DATA_SET_BIGWIGGLE_ISCOMPRESSED.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_ISCOMPRESSED.setSection(None) assignment_DATA_SET_BIGWIGGLE_ISCOMPRESSED.setPositionInForms(5) assignment_DATA_SET_BIGWIGGLE_ISSWAPPED = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_ISSWAPPED) assignment_DATA_SET_BIGWIGGLE_ISSWAPPED.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_ISSWAPPED.setSection(None) assignment_DATA_SET_BIGWIGGLE_ISSWAPPED.setPositionInForms(6) assignment_DATA_SET_BIGWIGGLE_PRIMARYDATASIZE = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_PRIMARYDATASIZE) assignment_DATA_SET_BIGWIGGLE_PRIMARYDATASIZE.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_PRIMARYDATASIZE.setSection(None) assignment_DATA_SET_BIGWIGGLE_PRIMARYDATASIZE.setPositionInForms(7) assignment_DATA_SET_BIGWIGGLE_PRIMARYINDEXSIZE = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_PRIMARYINDEXSIZE) assignment_DATA_SET_BIGWIGGLE_PRIMARYINDEXSIZE.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_PRIMARYINDEXSIZE.setSection(None) assignment_DATA_SET_BIGWIGGLE_PRIMARYINDEXSIZE.setPositionInForms(8) assignment_DATA_SET_BIGWIGGLE_ZOOMLEVELS = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_ZOOMLEVELS) assignment_DATA_SET_BIGWIGGLE_ZOOMLEVELS.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_ZOOMLEVELS.setSection(None) assignment_DATA_SET_BIGWIGGLE_ZOOMLEVELS.setPositionInForms(9) assignment_DATA_SET_BIGWIGGLE_CHROMCOUNT = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_CHROMCOUNT) assignment_DATA_SET_BIGWIGGLE_CHROMCOUNT.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_CHROMCOUNT.setSection(None) assignment_DATA_SET_BIGWIGGLE_CHROMCOUNT.setPositionInForms(10) assignment_DATA_SET_BIGWIGGLE_BASESCOVERED = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_BASESCOVERED) assignment_DATA_SET_BIGWIGGLE_BASESCOVERED.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_BASESCOVERED.setSection(None) assignment_DATA_SET_BIGWIGGLE_BASESCOVERED.setPositionInForms(11) assignment_DATA_SET_BIGWIGGLE_MEAN = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_MEAN) assignment_DATA_SET_BIGWIGGLE_MEAN.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_MEAN.setSection(None) assignment_DATA_SET_BIGWIGGLE_MEAN.setPositionInForms(12) assignment_DATA_SET_BIGWIGGLE_MIN = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_MIN) assignment_DATA_SET_BIGWIGGLE_MIN.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_MIN.setSection(None) assignment_DATA_SET_BIGWIGGLE_MIN.setPositionInForms(13) assignment_DATA_SET_BIGWIGGLE_MAX = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_MAX) assignment_DATA_SET_BIGWIGGLE_MAX.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_MAX.setSection(None) assignment_DATA_SET_BIGWIGGLE_MAX.setPositionInForms(14) assignment_DATA_SET_BIGWIGGLE_STD = tr.assignPropertyType(data_set_type_BIGWIGGLE, prop_type_STD) assignment_DATA_SET_BIGWIGGLE_STD.setMandatory(False) assignment_DATA_SET_BIGWIGGLE_STD.setSection(None) assignment_DATA_SET_BIGWIGGLE_STD.setPositionInForms(15) assignment_DATA_SET_FASTQ_GZ_NOTES = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_NOTES) assignment_DATA_SET_FASTQ_GZ_NOTES.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_NOTES.setSection(None) assignment_DATA_SET_FASTQ_GZ_NOTES.setPositionInForms(3) assignment_DATA_SET_FASTQ_GZ_YIELD_MBASES = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_YIELD_MBASES) assignment_DATA_SET_FASTQ_GZ_YIELD_MBASES.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_YIELD_MBASES.setSection(None) assignment_DATA_SET_FASTQ_GZ_YIELD_MBASES.setPositionInForms(4) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PASSED_FILTERING = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_PERCENTAGE_PASSED_FILTERING) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PASSED_FILTERING.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PASSED_FILTERING.setSection(None) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PASSED_FILTERING.setPositionInForms(5) assignment_DATA_SET_FASTQ_GZ_BARCODE = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_BARCODE) assignment_DATA_SET_FASTQ_GZ_BARCODE.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_BARCODE.setSection(None) assignment_DATA_SET_FASTQ_GZ_BARCODE.setPositionInForms(6) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_RAW_CLUSTERS_PER_LANE = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_PERCENTAGE_RAW_CLUSTERS_PER_LANE) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_RAW_CLUSTERS_PER_LANE.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_RAW_CLUSTERS_PER_LANE.setSection(None) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_RAW_CLUSTERS_PER_LANE.setPositionInForms(7) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PERFECT_INDEX_READS = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_PERCENTAGE_PERFECT_INDEX_READS) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PERFECT_INDEX_READS.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PERFECT_INDEX_READS.setSection(None) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_PERFECT_INDEX_READS.setPositionInForms(8) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_ONE_MISMATCH_READS_INDEX = tr.assignPropertyType(data_set_type_FASTQ_GZ, prop_type_PERCENTAGE_ONE_MISMATCH_READS_INDEX) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_ONE_MISMATCH_READS_INDEX.setMandatory(False) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_ONE_MISMATCH_READS_INDEX.setSection(None) assignment_DATA_SET_FASTQ_GZ_PERCENTAGE_ONE_MISMATCH_READS_INDEX.setPositionInForms(9) assignment_EXPERIMENT_HT_SEQUENCING_EXPERIMENT_DESIGN = tr.assignPropertyType(exp_type_HT_SEQUENCING, prop_type_EXPERIMENT_DESIGN) assignment_EXPERIMENT_HT_SEQUENCING_EXPERIMENT_DESIGN.setMandatory(False) assignment_EXPERIMENT_HT_SEQUENCING_EXPERIMENT_DESIGN.setSection(None) assignment_EXPERIMENT_HT_SEQUENCING_EXPERIMENT_DESIGN.setPositionInForms(3) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_SEQUENCER) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER.setPositionInForms(4) assignment_SAMPLE_ILLUMINA_FLOW_CELL_END_TYPE = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_END_TYPE) assignment_SAMPLE_ILLUMINA_FLOW_CELL_END_TYPE.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_END_TYPE.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_END_TYPE.setPositionInForms(6) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOW_CELL_SEQUENCED_ON = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_FLOW_CELL_SEQUENCED_ON) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOW_CELL_SEQUENCED_ON.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOW_CELL_SEQUENCED_ON.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOW_CELL_SEQUENCED_ON.setPositionInForms(7) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER_FINISHED = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_SEQUENCER_FINISHED) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER_FINISHED.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER_FINISHED.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SEQUENCER_FINISHED.setPositionInForms(8) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ILLUMINA_PIPELINE_VERSION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_ILLUMINA_PIPELINE_VERSION) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ILLUMINA_PIPELINE_VERSION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ILLUMINA_PIPELINE_VERSION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ILLUMINA_PIPELINE_VERSION.setPositionInForms(9) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CYCLES_REQUESTED_BY_CUSTOMER = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_CYCLES_REQUESTED_BY_CUSTOMER) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CYCLES_REQUESTED_BY_CUSTOMER.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CYCLES_REQUESTED_BY_CUSTOMER.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CYCLES_REQUESTED_BY_CUSTOMER.setPositionInForms(10) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_INDEXREAD) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD.setPositionInForms(11) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD2 = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_INDEXREAD2) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD2.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD2.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_INDEXREAD2.setPositionInForms(12) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CONTROL_LANE = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_CONTROL_LANE) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CONTROL_LANE.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CONTROL_LANE.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_CONTROL_LANE.setPositionInForms(13) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOWCELLTYPE = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_FLOWCELLTYPE) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOWCELLTYPE.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOWCELLTYPE.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_FLOWCELLTYPE.setPositionInForms(14) assignment_SAMPLE_ILLUMINA_FLOW_CELL_LANECOUNT = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_LANECOUNT) assignment_SAMPLE_ILLUMINA_FLOW_CELL_LANECOUNT.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_LANECOUNT.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_LANECOUNT.setPositionInForms(15) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SURFACECOUNT = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_SURFACECOUNT) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SURFACECOUNT.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SURFACECOUNT.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SURFACECOUNT.setPositionInForms(16) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SWATHCOUNT = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_SWATHCOUNT) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SWATHCOUNT.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SWATHCOUNT.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SWATHCOUNT.setPositionInForms(17) assignment_SAMPLE_ILLUMINA_FLOW_CELL_TILECOUNT = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_TILECOUNT) assignment_SAMPLE_ILLUMINA_FLOW_CELL_TILECOUNT.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_TILECOUNT.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_TILECOUNT.setPositionInForms(18) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SBS_KIT = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_SBS_KIT) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SBS_KIT.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SBS_KIT.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_SBS_KIT.setPositionInForms(19) assignment_SAMPLE_ILLUMINA_FLOW_CELL_PAIRED_END_KIT = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_PAIRED_END_KIT) assignment_SAMPLE_ILLUMINA_FLOW_CELL_PAIRED_END_KIT.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_PAIRED_END_KIT.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_PAIRED_END_KIT.setPositionInForms(20) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ANALYSIS_FINISHED = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_ANALYSIS_FINISHED) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ANALYSIS_FINISHED.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ANALYSIS_FINISHED.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_ANALYSIS_FINISHED.setPositionInForms(22) assignment_SAMPLE_ILLUMINA_FLOW_CELL_NOTES = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_CELL, prop_type_NOTES) assignment_SAMPLE_ILLUMINA_FLOW_CELL_NOTES.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_CELL_NOTES.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_CELL_NOTES.setPositionInForms(23) assignment_SAMPLE_ILLUMINA_FLOW_LANE_DATA_TRANSFERRED = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_DATA_TRANSFERRED) assignment_SAMPLE_ILLUMINA_FLOW_LANE_DATA_TRANSFERRED.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_DATA_TRANSFERRED.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_DATA_TRANSFERRED.setPositionInForms(3) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_CLUSTER_STATION) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION.setPositionInForms(7) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CREATED_ON_CS = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_CREATED_ON_CS) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CREATED_ON_CS.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CREATED_ON_CS.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CREATED_ON_CS.setPositionInForms(8) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CS_PROTOCOL_VERSION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_CS_PROTOCOL_VERSION) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CS_PROTOCOL_VERSION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CS_PROTOCOL_VERSION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CS_PROTOCOL_VERSION.setPositionInForms(9) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_GENERATION_KIT_VERSION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_CLUSTER_GENERATION_KIT_VERSION) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_GENERATION_KIT_VERSION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_GENERATION_KIT_VERSION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_GENERATION_KIT_VERSION.setPositionInForms(10) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION_SOFTWARE_VERSION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_CLUSTER_STATION_SOFTWARE_VERSION) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION_SOFTWARE_VERSION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION_SOFTWARE_VERSION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CLUSTER_STATION_SOFTWARE_VERSION.setPositionInForms(11) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CONCENTRATION_FLOWLANE = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_CONCENTRATION_FLOWLANE) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CONCENTRATION_FLOWLANE.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CONCENTRATION_FLOWLANE.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_CONCENTRATION_FLOWLANE.setPositionInForms(12) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SCS_PROTOCOL_VERSION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_SCS_PROTOCOL_VERSION) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SCS_PROTOCOL_VERSION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SCS_PROTOCOL_VERSION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SCS_PROTOCOL_VERSION.setPositionInForms(13) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SBS_SEQUENCING_KIT_VERSION = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_SBS_SEQUENCING_KIT_VERSION) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SBS_SEQUENCING_KIT_VERSION.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SBS_SEQUENCING_KIT_VERSION.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_SBS_SEQUENCING_KIT_VERSION.setPositionInForms(14) assignment_SAMPLE_ILLUMINA_FLOW_LANE_NOTES = tr.assignPropertyType(samp_type_ILLUMINA_FLOW_LANE, prop_type_NOTES) assignment_SAMPLE_ILLUMINA_FLOW_LANE_NOTES.setMandatory(False) assignment_SAMPLE_ILLUMINA_FLOW_LANE_NOTES.setSection(None) assignment_SAMPLE_ILLUMINA_FLOW_LANE_NOTES.setPositionInForms(15) assignment_DATA_SET_ILLUMINA_GA_OUTPUT_SAMPLE_KIND = tr.assignPropertyType(data_set_type_ILLUMINA_GA_OUTPUT, prop_type_SAMPLE_KIND) assignment_DATA_SET_ILLUMINA_GA_OUTPUT_SAMPLE_KIND.setMandatory(False) assignment_DATA_SET_ILLUMINA_GA_OUTPUT_SAMPLE_KIND.setSection(None) assignment_DATA_SET_ILLUMINA_GA_OUTPUT_SAMPLE_KIND.setPositionInForms(3) assignment_DATA_SET_ILLUMINA_HISEQ_OUTPUT_CASAVA_VERSION = tr.assignPropertyType(data_set_type_ILLUMINA_HISEQ_OUTPUT, prop_type_CASAVA_VERSION) assignment_DATA_SET_ILLUMINA_HISEQ_OUTPUT_CASAVA_VERSION.setMandatory(False) assignment_DATA_SET_ILLUMINA_HISEQ_OUTPUT_CASAVA_VERSION.setSection(None) assignment_DATA_SET_ILLUMINA_HISEQ_OUTPUT_CASAVA_VERSION.setPositionInForms(3) assignment_SAMPLE_LIBRARY_BARCODE = tr.assignPropertyType(samp_type_LIBRARY, prop_type_BARCODE) assignment_SAMPLE_LIBRARY_BARCODE.setMandatory(False) assignment_SAMPLE_LIBRARY_BARCODE.setSection(None) assignment_SAMPLE_LIBRARY_BARCODE.setPositionInForms(2) assignment_SAMPLE_LIBRARY_INDEX2 = tr.assignPropertyType(samp_type_LIBRARY, prop_type_INDEX2) assignment_SAMPLE_LIBRARY_INDEX2.setMandatory(False) assignment_SAMPLE_LIBRARY_INDEX2.setSection(None) assignment_SAMPLE_LIBRARY_INDEX2.setPositionInForms(3) assignment_SAMPLE_LIBRARY_CONCENTRATION_PREPARED_ILLUMINA = tr.assignPropertyType(samp_type_LIBRARY, prop_type_CONCENTRATION_PREPARED_ILLUMINA) assignment_SAMPLE_LIBRARY_CONCENTRATION_PREPARED_ILLUMINA.setMandatory(False) assignment_SAMPLE_LIBRARY_CONCENTRATION_PREPARED_ILLUMINA.setSection(None) assignment_SAMPLE_LIBRARY_CONCENTRATION_PREPARED_ILLUMINA.setPositionInForms(4) assignment_SAMPLE_LIBRARY_PREPARED_BY = tr.assignPropertyType(samp_type_LIBRARY, prop_type_PREPARED_BY) assignment_SAMPLE_LIBRARY_PREPARED_BY.setMandatory(False) assignment_SAMPLE_LIBRARY_PREPARED_BY.setSection(None) assignment_SAMPLE_LIBRARY_PREPARED_BY.setPositionInForms(5) assignment_SAMPLE_LIBRARY_KIT_PREPARED = tr.assignPropertyType(samp_type_LIBRARY, prop_type_KIT_PREPARED) assignment_SAMPLE_LIBRARY_KIT_PREPARED.setMandatory(False) assignment_SAMPLE_LIBRARY_KIT_PREPARED.setSection(None) assignment_SAMPLE_LIBRARY_KIT_PREPARED.setPositionInForms(6) assignment_SAMPLE_LIBRARY_KIT = tr.assignPropertyType(samp_type_LIBRARY, prop_type_KIT) assignment_SAMPLE_LIBRARY_KIT.setMandatory(False) assignment_SAMPLE_LIBRARY_KIT.setSection(None) assignment_SAMPLE_LIBRARY_KIT.setPositionInForms(7) assignment_SAMPLE_LIBRARY_LOT = tr.assignPropertyType(samp_type_LIBRARY, prop_type_LOT) assignment_SAMPLE_LIBRARY_LOT.setMandatory(False) assignment_SAMPLE_LIBRARY_LOT.setSection(None) assignment_SAMPLE_LIBRARY_LOT.setPositionInForms(8) assignment_SAMPLE_LIBRARY_STARTING_AMOUNT_OF_SAMPLE_IN_NG = tr.assignPropertyType(samp_type_LIBRARY, prop_type_STARTING_AMOUNT_OF_SAMPLE_IN_NG) assignment_SAMPLE_LIBRARY_STARTING_AMOUNT_OF_SAMPLE_IN_NG.setMandatory(False) assignment_SAMPLE_LIBRARY_STARTING_AMOUNT_OF_SAMPLE_IN_NG.setSection(None) assignment_SAMPLE_LIBRARY_STARTING_AMOUNT_OF_SAMPLE_IN_NG.setPositionInForms(9) assignment_SAMPLE_LIBRARY_DNA_CONCENTRATION_OF_LIBRARY = tr.assignPropertyType(samp_type_LIBRARY, prop_type_DNA_CONCENTRATION_OF_LIBRARY) assignment_SAMPLE_LIBRARY_DNA_CONCENTRATION_OF_LIBRARY.setMandatory(False) assignment_SAMPLE_LIBRARY_DNA_CONCENTRATION_OF_LIBRARY.setSection(None) assignment_SAMPLE_LIBRARY_DNA_CONCENTRATION_OF_LIBRARY.setPositionInForms(10) assignment_SAMPLE_LIBRARY_NANO_DROP = tr.assignPropertyType(samp_type_LIBRARY, prop_type_NANO_DROP) assignment_SAMPLE_LIBRARY_NANO_DROP.setMandatory(False) assignment_SAMPLE_LIBRARY_NANO_DROP.setSection(None) assignment_SAMPLE_LIBRARY_NANO_DROP.setPositionInForms(11) assignment_SAMPLE_LIBRARY_AGILENT_KIT = tr.assignPropertyType(samp_type_LIBRARY, prop_type_AGILENT_KIT) assignment_SAMPLE_LIBRARY_AGILENT_KIT.setMandatory(False) assignment_SAMPLE_LIBRARY_AGILENT_KIT.setSection(None) assignment_SAMPLE_LIBRARY_AGILENT_KIT.setPositionInForms(12) assignment_SAMPLE_LIBRARY_LIBRARY_PROCESSING_SUCCESSFUL = tr.assignPropertyType(samp_type_LIBRARY, prop_type_LIBRARY_PROCESSING_SUCCESSFUL) assignment_SAMPLE_LIBRARY_LIBRARY_PROCESSING_SUCCESSFUL.setMandatory(False) assignment_SAMPLE_LIBRARY_LIBRARY_PROCESSING_SUCCESSFUL.setSection(None) assignment_SAMPLE_LIBRARY_LIBRARY_PROCESSING_SUCCESSFUL.setPositionInForms(13) assignment_SAMPLE_LIBRARY_DATA_TRANSFERRED = tr.assignPropertyType(samp_type_LIBRARY, prop_type_DATA_TRANSFERRED) assignment_SAMPLE_LIBRARY_DATA_TRANSFERRED.setMandatory(False) assignment_SAMPLE_LIBRARY_DATA_TRANSFERRED.setSection(None) assignment_SAMPLE_LIBRARY_DATA_TRANSFERRED.setPositionInForms(14) assignment_SAMPLE_LIBRARY_INVOICE = tr.assignPropertyType(samp_type_LIBRARY, prop_type_INVOICE) assignment_SAMPLE_LIBRARY_INVOICE.setMandatory(False) assignment_SAMPLE_LIBRARY_INVOICE.setSection(None) assignment_SAMPLE_LIBRARY_INVOICE.setPositionInForms(15) assignment_SAMPLE_LIBRARY_NOTES = tr.assignPropertyType(samp_type_LIBRARY, prop_type_NOTES) assignment_SAMPLE_LIBRARY_NOTES.setMandatory(False) assignment_SAMPLE_LIBRARY_NOTES.setSection(None) assignment_SAMPLE_LIBRARY_NOTES.setPositionInForms(16) assignment_DATA_SET_MACS_OUTPUT_MACS_VERSION = tr.assignPropertyType(data_set_type_MACS_OUTPUT, prop_type_MACS_VERSION) assignment_DATA_SET_MACS_OUTPUT_MACS_VERSION.setMandatory(False) assignment_DATA_SET_MACS_OUTPUT_MACS_VERSION.setSection(None) assignment_DATA_SET_MACS_OUTPUT_MACS_VERSION.setPositionInForms(3) assignment_DATA_SET_MACS_OUTPUT_NOTES = tr.assignPropertyType(data_set_type_MACS_OUTPUT, prop_type_NOTES) assignment_DATA_SET_MACS_OUTPUT_NOTES.setMandatory(False) assignment_DATA_SET_MACS_OUTPUT_NOTES.setSection(None) assignment_DATA_SET_MACS_OUTPUT_NOTES.setPositionInForms(4) assignment_SAMPLE_MASTER_CONTACT_PERSON_NAME = tr.assignPropertyType(samp_type_MASTER, prop_type_CONTACT_PERSON_NAME) assignment_SAMPLE_MASTER_CONTACT_PERSON_NAME.setMandatory(False) assignment_SAMPLE_MASTER_CONTACT_PERSON_NAME.setSection(None) assignment_SAMPLE_MASTER_CONTACT_PERSON_NAME.setPositionInForms(2) assignment_SAMPLE_MASTER_CONTACT_PERSON_EMAIL = tr.assignPropertyType(samp_type_MASTER, prop_type_CONTACT_PERSON_EMAIL) assignment_SAMPLE_MASTER_CONTACT_PERSON_EMAIL.setMandatory(False) assignment_SAMPLE_MASTER_CONTACT_PERSON_EMAIL.setSection(None) assignment_SAMPLE_MASTER_CONTACT_PERSON_EMAIL.setPositionInForms(3) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_NAME = tr.assignPropertyType(samp_type_MASTER, prop_type_PRINCIPAL_INVESTIGATOR_NAME) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_NAME.setMandatory(False) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_NAME.setSection(None) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_NAME.setPositionInForms(4) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_EMAIL = tr.assignPropertyType(samp_type_MASTER, prop_type_PRINCIPAL_INVESTIGATOR_EMAIL) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_EMAIL.setMandatory(False) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_EMAIL.setSection(None) assignment_SAMPLE_MASTER_PRINCIPAL_INVESTIGATOR_EMAIL.setPositionInForms(5) assignment_SAMPLE_MASTER_EXTERNAL_SAMPLE_NAME = tr.assignPropertyType(samp_type_MASTER, prop_type_EXTERNAL_SAMPLE_NAME) assignment_SAMPLE_MASTER_EXTERNAL_SAMPLE_NAME.setMandatory(False) assignment_SAMPLE_MASTER_EXTERNAL_SAMPLE_NAME.setSection(None) assignment_SAMPLE_MASTER_EXTERNAL_SAMPLE_NAME.setPositionInForms(6) assignment_SAMPLE_MASTER_BIOLOGICAL_SAMPLE_ARRIVED = tr.assignPropertyType(samp_type_MASTER, prop_type_BIOLOGICAL_SAMPLE_ARRIVED) assignment_SAMPLE_MASTER_BIOLOGICAL_SAMPLE_ARRIVED.setMandatory(False) assignment_SAMPLE_MASTER_BIOLOGICAL_SAMPLE_ARRIVED.setSection(None) assignment_SAMPLE_MASTER_BIOLOGICAL_SAMPLE_ARRIVED.setPositionInForms(7) assignment_SAMPLE_MASTER_SAMPLE_KIND = tr.assignPropertyType(samp_type_MASTER, prop_type_SAMPLE_KIND) assignment_SAMPLE_MASTER_SAMPLE_KIND.setMandatory(False) assignment_SAMPLE_MASTER_SAMPLE_KIND.setSection(None) assignment_SAMPLE_MASTER_SAMPLE_KIND.setPositionInForms(8) assignment_SAMPLE_MASTER_SEQUENCING_APPLICATION = tr.assignPropertyType(samp_type_MASTER, prop_type_SEQUENCING_APPLICATION) assignment_SAMPLE_MASTER_SEQUENCING_APPLICATION.setMandatory(False) assignment_SAMPLE_MASTER_SEQUENCING_APPLICATION.setSection(None) assignment_SAMPLE_MASTER_SEQUENCING_APPLICATION.setPositionInForms(9) assignment_SAMPLE_MASTER_NCBI_ORGANISM_TAXONOMY = tr.assignPropertyType(samp_type_MASTER, prop_type_NCBI_ORGANISM_TAXONOMY) assignment_SAMPLE_MASTER_NCBI_ORGANISM_TAXONOMY.setMandatory(False) assignment_SAMPLE_MASTER_NCBI_ORGANISM_TAXONOMY.setSection(None) assignment_SAMPLE_MASTER_NCBI_ORGANISM_TAXONOMY.setPositionInForms(10) assignment_SAMPLE_RAW_CONCENTRATION_ORIGINAL_ILLUMINA = tr.assignPropertyType(samp_type_RAW, prop_type_CONCENTRATION_ORIGINAL_ILLUMINA) assignment_SAMPLE_RAW_CONCENTRATION_ORIGINAL_ILLUMINA.setMandatory(False) assignment_SAMPLE_RAW_CONCENTRATION_ORIGINAL_ILLUMINA.setSection(None) assignment_SAMPLE_RAW_CONCENTRATION_ORIGINAL_ILLUMINA.setPositionInForms(2) assignment_SAMPLE_RAW_CYCLES_REQUESTED_BY_CUSTOMER = tr.assignPropertyType(samp_type_RAW, prop_type_CYCLES_REQUESTED_BY_CUSTOMER) assignment_SAMPLE_RAW_CYCLES_REQUESTED_BY_CUSTOMER.setMandatory(False) assignment_SAMPLE_RAW_CYCLES_REQUESTED_BY_CUSTOMER.setSection(None) assignment_SAMPLE_RAW_CYCLES_REQUESTED_BY_CUSTOMER.setPositionInForms(3) assignment_SAMPLE_RAW_LIBRARY_PROCESSING_POSSIBLE = tr.assignPropertyType(samp_type_RAW, prop_type_LIBRARY_PROCESSING_POSSIBLE) assignment_SAMPLE_RAW_LIBRARY_PROCESSING_POSSIBLE.setMandatory(False) assignment_SAMPLE_RAW_LIBRARY_PROCESSING_POSSIBLE.setSection(None) assignment_SAMPLE_RAW_LIBRARY_PROCESSING_POSSIBLE.setPositionInForms(4) assignment_SAMPLE_RAW_PREPARED_BY = tr.assignPropertyType(samp_type_RAW, prop_type_PREPARED_BY) assignment_SAMPLE_RAW_PREPARED_BY.setMandatory(False) assignment_SAMPLE_RAW_PREPARED_BY.setSection(None) assignment_SAMPLE_RAW_PREPARED_BY.setPositionInForms(5) assignment_SAMPLE_RAW_KIT_PREPARED = tr.assignPropertyType(samp_type_RAW, prop_type_KIT_PREPARED) assignment_SAMPLE_RAW_KIT_PREPARED.setMandatory(False) assignment_SAMPLE_RAW_KIT_PREPARED.setSection(None) assignment_SAMPLE_RAW_KIT_PREPARED.setPositionInForms(6) assignment_SAMPLE_RAW_INVOICE = tr.assignPropertyType(samp_type_RAW, prop_type_INVOICE) assignment_SAMPLE_RAW_INVOICE.setMandatory(False) assignment_SAMPLE_RAW_INVOICE.setSection(None) assignment_SAMPLE_RAW_INVOICE.setPositionInForms(7) assignment_SAMPLE_RAW_NOTES = tr.assignPropertyType(samp_type_RAW, prop_type_NOTES) assignment_SAMPLE_RAW_NOTES.setMandatory(False) assignment_SAMPLE_RAW_NOTES.setSection(None) assignment_SAMPLE_RAW_NOTES.setPositionInForms(8)