millironx/nf-core_modules
1
0
Fork 0
mirror of https://github.com/MillironX/nf-core_modules.git synced 2024-12-31 11:42:12 -05:00
Code Issues Releases Packages Activity

update VEP version + cache

Browse source
This commit is contained in:
MaxUlysse 2022-06-02 16:09:09 +02:00
parent 59ce1ec348
commit 046fa39582
3 changed files with 10 additions and 10 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

4
modules/ensemblvep/Dockerfile
View file

@ -11,8 +11,8 @@ RUN conda env create -f /environment.yml && conda clean -a
# Setup default ARG variables # Setup default ARG variables
ARG GENOME=GRCh38 ARG GENOME=GRCh38
ARG SPECIES=homo_sapiens ARG SPECIES=homo_sapiens
ARG VEP_VERSION=104 ARG VEP_VERSION=105
ARG VEP_TAG=104.3 ARG VEP_TAG=105.0
# Add conda installation dir to PATH (instead of doing 'conda activate') # Add conda installation dir to PATH (instead of doing 'conda activate')
ENV PATH /opt/conda/envs/nf-core-vep-${VEP_TAG}/bin:$PATH ENV PATH /opt/conda/envs/nf-core-vep-${VEP_TAG}/bin:$PATH

12
modules/ensemblvep/build.sh
View file

@ -20,9 +20,9 @@ build_push() {
docker push nfcore/vep:${VEP_TAG}.${GENOME} docker push nfcore/vep:${VEP_TAG}.${GENOME}
} }
build_push "GRCh37" "homo_sapiens" "104" "104.3" build_push "GRCh37" "homo_sapiens" "105" "105.0"
build_push "GRCh38" "homo_sapiens" "104" "104.3" build_push "GRCh38" "homo_sapiens" "105" "105.0"
build_push "GRCm38" "mus_musculus" "102" "104.3" build_push "GRCm38" "mus_musculus" "102" "105.0"
build_push "GRCm39" "mus_musculus" "104" "104.3" build_push "GRCm39" "mus_musculus" "105" "105.0"
build_push "CanFam3.1" "canis_lupus_familiaris" "104" "104.3" build_push "CanFam3.1" "canis_lupus_familiaris" "105" "105.0"
build_push "WBcel235" "caenorhabditis_elegans" "104" "104.3" build_push "WBcel235" "caenorhabditis_elegans" "105" "105.0"

4
modules/ensemblvep/environment.yml
View file

@ -1,10 +1,10 @@
# You can use this file to create a conda environment for this module: # You can use this file to create a conda environment for this module:
# conda env create -f environment.yml # conda env create -f environment.yml
name: nf-core-vep-104.3 name: nf-core-vep-105.0
channels: channels:
- conda-forge - conda-forge
- bioconda - bioconda
- defaults - defaults
dependencies: dependencies:
- bioconda::ensembl-vep=104.3 - bioconda::ensembl-vep=105.0