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fix(spark): load spark profile after loading the test profiles
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nextflow.config

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -200,9 +200,6 @@ profiles {
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arm {
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docker.runOptions = '-u $(id -u):$(id -g) --platform=linux/amd64'
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}
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spark {
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docker.runOptions = ''
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}
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singularity {
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apptainer.enabled = false
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charliecloud.enabled = false
@@ -289,6 +286,9 @@ profiles {
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test_full_germline_ncbench_agilent {
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includeConfig 'conf/test_full_germline_ncbench_agilent.config'
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}
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spark {
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docker.runOptions = ''
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}
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// Extra test profiles for more complete CI
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alignment_to_fastq { includeConfig 'conf/test/alignment_to_fastq.config' }

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