diff --git a/modules/local/fusioninspector/environment.yml b/modules/local/fusioninspector/environment.yml index f5d21d5a..ef7f9316 100644 --- a/modules/local/fusioninspector/environment.yml +++ b/modules/local/fusioninspector/environment.yml @@ -5,7 +5,4 @@ dependencies: - bioconda::dfam=3.7 - bioconda::hmmer=3.4 - bioconda::minimap2=2.28 - - bioconda::samtools=1.6 - bioconda::star-fusion=1.14.0 - - bioconda::star=2.7.11b - - bioconda::trinity=2.8.5 diff --git a/modules/local/fusioninspector/main.nf b/modules/local/fusioninspector/main.nf index 53a0bb45..ade7c174 100644 --- a/modules/local/fusioninspector/main.nf +++ b/modules/local/fusioninspector/main.nf @@ -4,8 +4,8 @@ process FUSIONINSPECTOR { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/star-fusion:1.14.0--hdfd78af_0' : - 'community.wave.seqera.io/library/dfam_hmmer_minimap2_samtools_pruned:bd39df228dad7086'}" + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' : + 'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}" input: tuple val(meta), path(reads), path(fusion_list) diff --git a/modules/local/starfusion/build/main.nf b/modules/local/starfusion/build/main.nf index ad35b067..05abec92 100644 --- a/modules/local/starfusion/build/main.nf +++ b/modules/local/starfusion/build/main.nf @@ -4,7 +4,7 @@ process STARFUSION_BUILD { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' : - 'community.wave.seqera.io/library/dfam_hmmer_star-fusion:e8fe96707386872f'}" + 'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}" input: tuple val(meta), path(fasta) diff --git a/modules/local/starfusion/detect/main.nf b/modules/local/starfusion/detect/main.nf index 691601e9..83b0dc2f 100644 --- a/modules/local/starfusion/detect/main.nf +++ b/modules/local/starfusion/detect/main.nf @@ -4,8 +4,8 @@ process STARFUSION { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/f7/f7977acd75883433483258a1cc21d069a64947af431b26c3fc13c6be62666dfa/data' : - 'community.wave.seqera.io/library/dfam_hmmer_star-fusion:e8fe96707386872f'}" + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' : + 'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}" input: tuple val(meta), path(reads), path(junction) diff --git a/modules/local/starfusion/download/main.nf b/modules/local/starfusion/download/main.nf index 7dffbf2c..989c2420 100644 --- a/modules/local/starfusion/download/main.nf +++ b/modules/local/starfusion/download/main.nf @@ -3,8 +3,8 @@ process STARFUSION_DOWNLOAD { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/f7/f7977acd75883433483258a1cc21d069a64947af431b26c3fc13c6be62666dfa/data' : - 'community.wave.seqera.io/library/dfam_hmmer_star-fusion:e8fe96707386872f'}" + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/be/bed86145102fdf7e381e1a506a4723676f98b4bbe1db5085d02213cef18525c9/data' : + 'community.wave.seqera.io/library/dfam_hmmer_minimap2_star-fusion:aa3a8e3951498552'}" output: path "ctat_genome_lib_build_dir/*" , emit: reference