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fix tests

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This commit is contained in:
Matthias De Smet 2022-05-22 06:51:27 +02:00
parent 3a2de0cf6f
commit cbceee9621
3 changed files with 1 additions and 16 deletions
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2
tests/modules/picard/collecthsmetrics/test.yml
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@ -5,7 +5,6 @@
- picard - picard
files: files:
- path: output/picard/test.CollectHsMetrics.coverage_metrics - path: output/picard/test.CollectHsMetrics.coverage_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- name: picard collecthsmetrics test_picard_collecthsmetrics_nofasta - name: picard collecthsmetrics test_picard_collecthsmetrics_nofasta
command: nextflow run ./tests/modules/picard/collecthsmetrics -entry test_picard_collecthsmetrics_nofasta -c ./tests/config/nextflow.config -c ./tests/modules/picard/collecthsmetrics/nextflow.config command: nextflow run ./tests/modules/picard/collecthsmetrics -entry test_picard_collecthsmetrics_nofasta -c ./tests/config/nextflow.config -c ./tests/modules/picard/collecthsmetrics/nextflow.config
@ -14,4 +13,3 @@
- picard - picard
files: files:
- path: output/picard/test.CollectHsMetrics.coverage_metrics - path: output/picard/test.CollectHsMetrics.coverage_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'

10
tests/modules/picard/collectmultiplemetrics/test.yml
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@ -32,22 +32,12 @@
- picard/collectmultiplemetrics - picard/collectmultiplemetrics
files: files:
- path: output/picard/test.CollectMultipleMetrics.alignment_summary_metrics - path: output/picard/test.CollectMultipleMetrics.alignment_summary_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle.pdf - path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle.pdf
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle_metrics - path: output/picard/test.CollectMultipleMetrics.base_distribution_by_cycle_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.insert_size_histogram.pdf - path: output/picard/test.CollectMultipleMetrics.insert_size_histogram.pdf
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.insert_size_metrics - path: output/picard/test.CollectMultipleMetrics.insert_size_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.quality_by_cycle.pdf - path: output/picard/test.CollectMultipleMetrics.quality_by_cycle.pdf
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.quality_by_cycle_metrics - path: output/picard/test.CollectMultipleMetrics.quality_by_cycle_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.quality_distribution.pdf - path: output/picard/test.CollectMultipleMetrics.quality_distribution.pdf
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.quality_distribution_metrics - path: output/picard/test.CollectMultipleMetrics.quality_distribution_metrics
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- path: output/picard/test.CollectMultipleMetrics.read_length_histogram.pdf - path: output/picard/test.CollectMultipleMetrics.read_length_histogram.pdf
contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'

5
tests/modules/picard/collectwgsmetrics/test.yml
View file

@ -5,7 +5,4 @@
- picard - picard
files: files:
- path: output/picard/test.CollectWgsMetrics.coverage_metrics - path: output/picard/test.CollectWgsMetrics.coverage_metrics
contains: contains: '[ # TODO nf-core: file md5sum was variable, please replace this text with a string found in the file instead ]'
- "GENOME_TERRITORY"
- "29829"
- "17554"