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Fix tests
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@ces
ces committed Nov 18, 2024
1 parent 4ae8e61 commit f552ad9
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4 changes: 2 additions & 2 deletions lib/WTSI/NPG/HTS/PacBio/AnalysisMonitor.pm
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Expand Up @@ -18,8 +18,8 @@ with qw[

our $VERSION = '';

Readonly::Scalar my $ISO_BULK_ANALYSIS = q{pb_segment_reads_and_isoseq};
Readonly::Scalar my $ISO_SC_ANALYSIS = q{pb_segment_reads_and_sc_isoseq};
Readonly::Scalar my $ISO_BULK_ANALYSIS => q{pb_segment_reads_and_isoseq};
Readonly::Scalar my $ISO_SC_ANALYSIS => q{pb_segment_reads_and_sc_isoseq};

has '+local_staging_area' =>
(required => 0);
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2 changes: 1 addition & 1 deletion t/data/pacbio/analysis/0000019480/cromwell-job/call-lima/execution/mlwh_locations.json
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@@ -1 +1 @@
{"version":"1.0","products":[{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.20618.0/1_A01/","pipeline_name":"npg-prod","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","seq_platform_name":"pacbio"},{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.829372.0/1_A01/","pipeline_name":"npg-prod","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","seq_platform_name":"pacbio"},{"pipeline_name":"npg-prod","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.52482.0/1_A01/","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","seq_platform_name":"pacbio"},{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.39705.0/1_A01/","pipeline_name":"npg-prod","seq_platform_name":"pacbio","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391"},{"pipeline_name":"npg-prod","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.660768.0/1_A01/","seq_platform_name":"pacbio","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391"},{"id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","seq_platform_name":"pacbio","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.54890.0/1_A01/","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","pipeline_name":"npg-prod"},{"seq_platform_name":"pacbio","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.8865.0/1_A01/","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam"},{"irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.13951.0/1_A01/","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","pipeline_name":"npg-prod","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","seq_platform_name":"pacbio"},{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.52268.0/1_A01/","pipeline_name":"npg-prod","seq_platform_name":"pacbio","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391"},{"irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.10204.0/1_A01/","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","pipeline_name":"npg-prod","seq_platform_name":"pacbio","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391"}]}
{"products":[{"id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.54890.0/1_A01/"},{"id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.4005526.0/1_A01/"},{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.52482.0/1_A01/","pipeline_name":"npg-prod","seq_platform_name":"pacbio"},{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.20618.0/1_A01/","pipeline_name":"npg-prod","seq_platform_name":"pacbio"},{"seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.52268.0/1_A01/","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam"},{"id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.13951.0/1_A01/"},{"id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.8865.0/1_A01/"},{"irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.39705.0/1_A01/","pipeline_name":"npg-prod","seq_platform_name":"pacbio"},{"seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.829372.0/1_A01/","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam"},{"seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.10204.0/1_A01/","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam"},{"irods_root_collection":"/Sanger1-dev/home/ces/AnalysisPublisherTest.660768.0/1_A01/","seq_platform_name":"pacbio","pipeline_name":"npg-prod","irods_data_relative_path":"m84098_240322_112047_s1.bc2048--bc2048.bam","id_product":"04bd5036fff6b0037535221ba755725b14ef0f4f44a3ac0030f899edaae2e391"}],"version":"1.0"}

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