Skip to content

Commit

Permalink
changed the docker for bug on platform
Browse files Browse the repository at this point in the history
  • Loading branch information
l-mansouri committed Oct 30, 2023
1 parent ba522c6 commit 2223fa2
Show file tree
Hide file tree
Showing 2 changed files with 24 additions and 1 deletion.
23 changes: 23 additions & 0 deletions containers/ped_parser/Dockerfile
Original file line number Diff line number Diff line change
@@ -0,0 +1,23 @@
FROM continuumio/miniconda3@sha256:77f9119def83d94b7afb654b39a1c21aaa7f255518aba57de08321760c27c86a

ENV VERSION="1.6.6-py_2"

ARG ENV_NAME="ped-parser"

LABEL description="Docker containing the ped_parser python package." \
software.version="${VERSION}" \
maintainer="Leila Mansouri: leila.mansouri@lifebit.ai" \
name="quay.io/lifebitaiorg/ped_parser:1.6.6-py_2"

#needed as per the documentation
RUN apt-get update -y &&\
apt-get install -y procps \
zlib1g &&\
rm -rf /var/lib/apt/lists/*

#installing the tool and its dependencies
RUN pip install ped_parser

RUN pip install pandas

ENTRYPOINT [ ]
2 changes: 1 addition & 1 deletion main.nf
Original file line number Diff line number Diff line change
Expand Up @@ -100,7 +100,7 @@ ch_exomiser_data = Channel.fromPath("${params.exomiser_data}")

// if(!params.ped_file & !params.hpo_file){
process ped_hpo_creation {
container 'quay.io/lifebitaiorg/ped_parser:latest'
container 'quay.io/lifebitaiorg/ped_parser:1.6.6'
publishDir "${params.outdir}/familyfile/", mode: 'copy'
errorStrategy 'retry'
maxErrors 5
Expand Down

0 comments on commit 2223fa2

Please sign in to comment.