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The script Pre_Merge_SV_Single.wdl fails to import to Dockstore. This error carries over to the Terra workspace (mgi-hall-anvil-terra/svtools_1000Genomes), so I haven't been able to get the example workspace to run.
warning /scripts/Pre_Merge_SV_Single.wdl: Failed to import 'https://raw.githubusercontent.com/hall-lab/sv-pipeline/terra-compatible-hja/scripts/Pre_Merge_SV_per_sample.wdl' (reason 1 of 1): ERROR: Unexpected symbol (line 49, col 5) when parsing '_gen19'. Expected rbrace, got "output_vcf_basename". output_vcf_basename = basename + '.filtered' ^ $e = $e <=> :dot :identifier -> MemberAccess( value=$0, member=$2 )
Hi,
The script Pre_Merge_SV_Single.wdl fails to import to Dockstore. This error carries over to the Terra workspace (mgi-hall-anvil-terra/svtools_1000Genomes), so I haven't been able to get the example workspace to run.
warning /scripts/Pre_Merge_SV_Single.wdl: Failed to import 'https://raw.githubusercontent.com/hall-lab/sv-pipeline/terra-compatible-hja/scripts/Pre_Merge_SV_per_sample.wdl' (reason 1 of 1): ERROR: Unexpected symbol (line 49, col 5) when parsing '_gen19'. Expected rbrace, got "output_vcf_basename". output_vcf_basename = basename + '.filtered' ^ $e = $e <=> :dot :identifier -> MemberAccess( value=$0, member=$2 )
Link to Dockstore: https://dockstore.org/workflows/github.com/hall-lab/sv-pipeline/pre_merge_sv_single:terra-compatible-hja?tab=files
Thank you,
Laura
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