diff --git a/recipes/seq-seq-pan/1.0.0/build.sh b/recipes/seq-seq-pan/1.0.0/build.sh deleted file mode 100755 index b3dabae16b6a1..0000000000000 --- a/recipes/seq-seq-pan/1.0.0/build.sh +++ /dev/null @@ -1,16 +0,0 @@ -#!/bin/bash - -mkdir -p $PREFIX/bin -mkdir -p $PREFIX/opt/seq-seq-pan/ - - -sed -i "s|\${BASH_SOURCE%/\*}|$PREFIX/opt/seq-seq-pan|g" seq-seq-pan -sed -i "s|\${BASH_SOURCE%/\*}|$PREFIX/opt/seq-seq-pan|g" seq-seq-pan-consensus -sed -i "s|\${BASH_SOURCE%/\*}|$PREFIX/opt/seq-seq-pan|g" seq-seq-pan-wga -sed -i "s|\${BASH_SOURCE%/\*}|$PREFIX/opt/seq-seq-pan|g" seq-seq-pan-genomedescription - -cp -r * $PREFIX/opt/seq-seq-pan/ -ln -s $PREFIX/opt/seq-seq-pan/seq-seq-pan $PREFIX/bin -ln -s $PREFIX/opt/seq-seq-pan/seq-seq-pan-consensus $PREFIX/bin -ln -s $PREFIX/opt/seq-seq-pan/seq-seq-pan-wga $PREFIX/bin -ln -s $PREFIX/opt/seq-seq-pan/seq-seq-pan-genomedescription $PREFIX/bin diff --git a/recipes/seq-seq-pan/1.0.0/meta.yaml b/recipes/seq-seq-pan/1.0.0/meta.yaml deleted file mode 100644 index e5597545f04e8..0000000000000 --- a/recipes/seq-seq-pan/1.0.0/meta.yaml +++ /dev/null @@ -1,36 +0,0 @@ -{% set version = "1.0.0" %} - -package: - name: seq-seq-pan - version: {{ version }} - -source: - url: https://gitlab.com/chrjan/seq-seq-pan/repository/v{{ version }}/archive.tar.gz - md5: 7a0c00d8de984f7129c7bcbe4fa26892 - -build: - number: 2 - skip: True # [osx or py27] - -requirements: - run: - - python - - biopython ==1.69 - - blat ==35 - - snakemake ==4.3 - - openjdk - - argparse - - progressivemauve ==snapshot-2015-02-13 - -test: - commands: - - seq-seq-pan -h > /dev/null - - seq-seq-pan-wga --no-hooks --config workdir=$PREFIX/opt/seq-seq-pan/example/minimal genomefile=genome_list.txt outfilename=ssp_example -n > /dev/null - - java -jar $PREFIX/opt/seq-seq-pan/java/XMFAConsensus/XMFAconsensus_majorityvote.jar -h > /dev/null - - seq-seq-pan-consensus -h > /dev/null - - seq-seq-pan-genomedescription -h >/dev/null - -about: - home: https://gitlab.com/chrjan/seq-seq-pan - license: FreeBSDLicense - summary: seq-seq-pan is a workflow for the SEQuential alignment of SEQuences to build a PAN-genome data structure and a whole-genome-alignment. diff --git a/recipes/seq-seq-pan/meta.yaml b/recipes/seq-seq-pan/meta.yaml index 5c275c617a20a..9cc56efc2e081 100644 --- a/recipes/seq-seq-pan/meta.yaml +++ b/recipes/seq-seq-pan/meta.yaml @@ -6,18 +6,21 @@ package: source: url: https://gitlab.com/chrjan/seq-seq-pan/repository/v{{ version }}/archive.tar.gz - md5: e053bc23c84493c29926aafafd77c966 + md5: 3d2b2c835d9a7f8412551e9462202c60 build: - number: 1 + number: 0 skip: True # [osx or py27] requirements: + host: + - python + run: - python - biopython ==1.69 - blat ==35 - - snakemake ==4.3 + - snakemake - openjdk - argparse - mauvealigner ==1.2.0 @@ -32,5 +35,5 @@ test: about: home: https://gitlab.com/chrjan/seq-seq-pan - license: FreeBSDLicense + license: FreeBSD summary: seq-seq-pan is a workflow for the SEQuential alignment of SEQuences to build a PAN-genome data structure and a whole-genome-alignment.