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Amandine PERRIN
pipeline_annotation
Commits
305b92d3
Commit
305b92d3
authored
Jul 22, 2020
by
Amandine PERRIN
Browse files
correction installation iqtree
parent
e808b1b7
Pipeline
#34359
passed with stage
in 8 minutes and 3 seconds
Changes
2
Pipelines
1
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.gitlab-ci.yml
View file @
305b92d3
...
...
@@ -22,73 +22,73 @@ build-test-image:
tags
:
-
k8s
build-install-barrnap
:
only
:
-
docker
stage
:
build
script
:
-
apk update
#; apk add git
# - git checkout master -- requirements.txt
-
docker build --pull -t "$CI_REGISTRY_IMAGE/install-ubuntu-barrnaponly" for_build/barrnap_only
-
docker push "$CI_REGISTRY_IMAGE/install-ubuntu-barrnaponly"
tags
:
-
k8s
#
build-install-barrnap:
#
only:
#
- docker
#
stage: build
#
script:
#
- apk update #; apk add git
#
# - git checkout master -- requirements.txt
#
- docker build --pull -t "$CI_REGISTRY_IMAGE/install-ubuntu-barrnaponly" for_build/barrnap_only
#
- docker push "$CI_REGISTRY_IMAGE/install-ubuntu-barrnaponly"
#
tags:
#
- k8s
build-install-annote-and-quicktree
:
only
:
-
docker
stage
:
build
script
:
-
apk update
#; apk add git
# - git checkout master -- requirements.txt
-
docker build --pull -t "$CI_REGISTRY_IMAGE/install-ubuntu-annote-quicktree" for_build/annote_and_1tree
-
docker push "$CI_REGISTRY_IMAGE/install-ubuntu-annote-quicktree"
tags
:
-
k8s
#
build-install-annote-and-quicktree:
#
only:
#
- docker
#
stage: build
#
script:
#
- apk update #; apk add git
#
# - git checkout master -- requirements.txt
#
- docker build --pull -t "$CI_REGISTRY_IMAGE/install-ubuntu-annote-quicktree" for_build/annote_and_1tree
#
- docker push "$CI_REGISTRY_IMAGE/install-ubuntu-annote-quicktree"
#
tags:
#
- k8s
build-ubuntu
:
only
:
-
docker
stage
:
build
script
:
-
apk update
# ; apk add git
# - git checkout master -- requirements.txt
-
docker build --pull -t "$CI_REGISTRY_IMAGE/install-ubuntu" for_build/ubuntu
-
docker push "$CI_REGISTRY_IMAGE/install-ubuntu"
tags
:
-
k8s
#
build-ubuntu:
#
only:
#
- docker
#
stage: build
#
script:
#
- apk update # ; apk add git
#
# - git checkout master -- requirements.txt
#
- docker build --pull -t "$CI_REGISTRY_IMAGE/install-ubuntu" for_build/ubuntu
#
- docker push "$CI_REGISTRY_IMAGE/install-ubuntu"
#
tags:
#
- k8s
build-mafft
:
only
:
-
docker
stage
:
build
script
:
-
apk update
# ; apk add git
# - git checkout master -- requirements.txt
-
docker build --pull -t "$CI_REGISTRY_IMAGE/install-mafft" for_build/mafft
-
docker push "$CI_REGISTRY_IMAGE/install-mafft"
tags
:
-
k8s
#
build-mafft:
#
only:
#
- docker
#
stage: build
#
script:
#
- apk update # ; apk add git
#
# - git checkout master -- requirements.txt
#
- docker build --pull -t "$CI_REGISTRY_IMAGE/install-mafft" for_build/mafft
#
- docker push "$CI_REGISTRY_IMAGE/install-mafft"
#
tags:
#
- k8s
build-mmseqs_and_fastme
:
only
:
-
docker
stage
:
build
script
:
-
apk update
# ; apk add git
# - git checkout master -- requirements.txt
-
docker build --pull -t "$CI_REGISTRY_IMAGE/install-mmseqs-fastme" for_build/mmseqs_and_fastme
-
docker push "$CI_REGISTRY_IMAGE/install-mmseqs-fastme"
tags
:
-
k8s
#
build-mmseqs_and_fastme:
#
only:
#
- docker
#
stage: build
#
script:
#
- apk update # ; apk add git
#
# - git checkout master -- requirements.txt
#
- docker build --pull -t "$CI_REGISTRY_IMAGE/install-mmseqs-fastme" for_build/mmseqs_and_fastme
#
- docker push "$CI_REGISTRY_IMAGE/install-mmseqs-fastme"
#
tags:
#
- k8s
build-install-prodigal
:
only
:
-
docker
stage
:
build
script
:
-
apk update
-
docker build --pull -t "$CI_REGISTRY_IMAGE/install-prodigal" for_build/prodigal
-
docker push "$CI_REGISTRY_IMAGE/install-prodigal"
tags
:
-
k8s
#
build-install-prodigal:
#
only:
#
- docker
#
stage: build
#
script:
#
- apk update
#
- docker build --pull -t "$CI_REGISTRY_IMAGE/install-prodigal" for_build/prodigal
#
- docker push "$CI_REGISTRY_IMAGE/install-prodigal"
#
tags:
#
- k8s
for_tests/Dockerfile
View file @
305b92d3
...
...
@@ -102,9 +102,18 @@ WORKDIR quicktree
RUN
make
&&
\
ln
-s
/tmp/quicktree/quicktree /usr/local/bin
# Install iqtree
WORKDIR
/tmp
RUN
wget https://github.com/Cibiv/IQ-TREE/releases/download/v1.6.12/iqtree-1.6.12-Linux.tar.gz
RUN
tar
-xzf
iqtree-1.6.12-Linux.tar.gz
&&
\
rm
iqtree-1.6.12-Linux.tar.gz
&&
\
l
-s
/tmp/iqtree-1.6.12-Linux/bin/iqtree /usr/local/bin
ln
-s
/tmp/iqtree-1.6.12-Linux/bin/iqtree /usr/local/bin
# Install iqtree2
WORKDIR
/tmp
RUN
wget https://github.com/Cibiv/IQ-TREE/releases/download/v2.0.6/iqtree-2.0.6-Linux.tar.gz
RUN
tar
-xzf
iqtree-2.0.6-Linux.tar.gz
&&
\
rm
iqtree-2.0.6-Linux.tar.gz
&&
\
ln
-s
/tmp/iqtree-2.0.6-Linux/bin/iqtree2 /usr/local/bin
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