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Fix invalid GATK container #3673

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merged 1 commit into from
Jul 27, 2023
Merged

Fix invalid GATK container #3673

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2 changes: 1 addition & 1 deletion modules/nf-core/gatk4/determinegermlinecontigploidy/main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -4,7 +4,7 @@ process GATK4_DETERMINEGERMLINECONTIGPLOIDY {
label 'process_single'

//Conda is not supported at the moment: https://github.com/broadinstitute/gatk/issues/7811
container "quay.io/nf-core/gatk:4.4.0.0" //Biocontainers is missing a package
container "nf-core/gatk:4.4.0.0" //Biocontainers is missing a package

// Exit if running this module with -profile conda / -profile mamba
if (workflow.profile.tokenize(',').intersect(['conda', 'mamba']).size() >= 1) {
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2 changes: 1 addition & 1 deletion modules/nf-core/gatk4/germlinecnvcaller/main.nf
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Expand Up @@ -3,7 +3,7 @@ process GATK4_GERMLINECNVCALLER {
label 'process_single'

//Conda is not supported at the moment: https://github.com/broadinstitute/gatk/issues/7811
container "quay.io/nf-core/gatk:4.4.0.0" //Biocontainers is missing a package
container "nf-core/gatk:4.4.0.0" //Biocontainers is missing a package

// Exit if running this module with -profile conda / -profile mamba
if (workflow.profile.tokenize(',').intersect(['conda', 'mamba']).size() >= 1) {
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2 changes: 1 addition & 1 deletion modules/nf-core/gatk4/postprocessgermlinecnvcalls/main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -3,7 +3,7 @@ process GATK4_POSTPROCESSGERMLINECNVCALLS {
label 'process_single'

//Conda is not supported at the moment: https://github.com/broadinstitute/gatk/issues/7811
container "quay.io/nf-core/gatk:4.4.0.0" //Biocontainers is missing a package
container "nf-core/gatk:4.4.0.0" //Biocontainers is missing a package

// Exit if running this module with -profile conda / -profile mamba
if (workflow.profile.tokenize(',').intersect(['conda', 'mamba']).size() >= 1) {
Expand Down
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