diff --git a/.github/workflows/docker_branch.yml b/.github/workflows/docker_branch.yml index 7a8b37e..5acfa8f 100644 --- a/.github/workflows/docker_branch.yml +++ b/.github/workflows/docker_branch.yml @@ -19,7 +19,7 @@ jobs: id: meta uses: docker/metadata-action@v3 with: - images: ${{ env.REPO_LOWER }} + images: ghcr.io/${{ env.REPO_LOWER }} tags: | type=ref,event=branch,prefix=branch- type=ref,event=pr diff --git a/Dockerfile b/Dockerfile index 338e8f7..2089191 100755 --- a/Dockerfile +++ b/Dockerfile @@ -45,7 +45,7 @@ RUN apk add --no-cache bash RUN cpan App:cpanminus RUN cpanm --no-wget Data::Compare && chown -R root:root /root/.cpanm RUN cpanm --no-wget DB_File XML::Parser::PerlSAX XML::Twig XML::DOM -RUN cpanm --no-wget Bio::Tools::CodonTable +RUN cpanm --no-wget --force Bio::Tools::CodonTable RUN cpanm --no-wget DBI RUN cpanm --no-wget Set::IntSpan diff --git a/src/main/docker/RNApeg.sh b/src/main/docker/RNApeg.sh index b0fe10b..38c66de 100755 --- a/src/main/docker/RNApeg.sh +++ b/src/main/docker/RNApeg.sh @@ -86,4 +86,4 @@ if [[ -n "$OUTPUT_DIR" ]]; then mkdir -p $OUTPUT_DIR output_arg="-o $OUTPUT_DIR" fi - junction_extraction_wrapper.pl -no-config -bam $BAMFILE -fasta $FASTA -refflat $REFFLAT -refgene $REFGENE -now ${output_arg} + junction_extraction_wrapper.pl -no-config -ignore-incompatible -bam $BAMFILE -fasta $FASTA -refflat $REFFLAT -refgene $REFGENE -now ${output_arg}