Commit a0ba37a6 authored by Yohan Jarosz's avatar Yohan Jarosz

Merge branch 'dev' into 'master'

Dev



See merge request !5
parents 1e737902 d36c6807
Pipeline #1694 failed with stages
in 50 seconds
...@@ -176,30 +176,32 @@ an-mt: ...@@ -176,30 +176,32 @@ an-mt:
- impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db analysis --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step --single-omics - impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db analysis --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step --single-omics
binny-mgmt: # binny-mgmt:
stage: binning # stage: binning
script: # script:
- mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID # - mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID
- cp -r /mnt/data/input/binny-mgmt/* $CI_PROJECT_DIR/$CI_BUILD_ID # - cp -r /mnt/data/input/binny-mgmt/* $CI_PROJECT_DIR/$CI_BUILD_ID
- impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db binning --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step # - impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db binning --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step
#
binny-mg: # binny-mg:
stage: binning # stage: binning
script: # script:
- mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID # - mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID
- cp -r /mnt/data/input/binny-mg/* $CI_PROJECT_DIR/$CI_BUILD_ID # - cp -r /mnt/data/input/binny-mg/* $CI_PROJECT_DIR/$CI_BUILD_ID
- impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db binning --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step --single-omics # - impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db binning --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step --single-omics
maxbin-mgmt: maxbin-mgmt:
stage: binning stage: manual
when: manual
script: script:
- mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID - mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID
- cp -r /mnt/data/input/maxbin-mgmt/* $CI_PROJECT_DIR/$CI_BUILD_ID - cp -r /mnt/data/input/maxbin-mgmt/* $CI_PROJECT_DIR/$CI_BUILD_ID
- impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db -b maxbin binning --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step - impy -s . -c $CI_PROJECT_DIR/test/default.conf.json -d /mnt/data/db -b maxbin binning --data-dir $CI_PROJECT_DIR/$CI_BUILD_ID --single-step
maxbin-mg: maxbin-mg:
stage: binning stage: manual
when: manual
script: script:
- mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID - mkdir -p $CI_PROJECT_DIR/$CI_BUILD_ID
- cp -r /mnt/data/input/maxbin-mg/* $CI_PROJECT_DIR/$CI_BUILD_ID - cp -r /mnt/data/input/maxbin-mg/* $CI_PROJECT_DIR/$CI_BUILD_ID
......
# Base container with tools dependencies for the IMP pipeline # Base container with tools dependencies for the IMP pipeline
# #
# VERSION 1.4.1 # VERSION 1.4
FROM ubuntu:trusty FROM ubuntu:trusty
MAINTAINER yohan.jarosz@uni.lu MAINTAINER yohan.jarosz@uni.lu
......
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