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Docker-in-Docker (DinD) capabilities of public runners deactivated.
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DELMOTTE Stephane
formation NGS 2021 Biosphere
Commits
ffebb976
Commit
ffebb976
authored
Aug 05, 2021
by
DELMOTTE Stephane
Browse files
ajout des environnements conda changement du chemin
parent
ec690b06
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appliance.yml
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appliance.yml
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ffebb976
...
...
@@ -77,7 +77,7 @@
-
name
:
activation des chanels conda pour root
shell
:
"
/
opt/
bin/conda
config
--add
channels
{{
item
}}"
shell
:
"
/
var/lib/miniconda3/conda
bin/conda
config
--add
channels
{{
item
}}"
become
:
yes
become_user
:
ubuntu
with_items
:
...
...
@@ -88,7 +88,7 @@
-
name
:
installation des programmes via conda pour l'ensemble des utilisateurs
command
:
"
/
opt/
bin/conda
install
{{
item
}}
-y
--channel
bioconda"
command
:
"
/
var/lib/miniconda3/conda
bin/conda
install
{{
item
}}
-y
--channel
bioconda"
with_items
:
-
fastqc
-
sra-tools
...
...
@@ -97,13 +97,13 @@
-
name
:
creation de l'environnement myenv
shell
:
"
/
opt/
bin/conda
create
-y
--name
myenv"
shell
:
"
/
var/lib/miniconda3/conda
bin/conda
create
-y
--name
myenv"
become
:
yes
become_user
:
ubuntu
-
name
:
installation des package dans myenv pour l'utilisateur ubuntu
shell
:
"
/
opt/
bin/conda
install
{{
item
}}
-y
--channel
bioconda
--name
myenv"
shell
:
"
/
var/lib/miniconda3/conda
bin/conda
install
{{
item
}}
-y
--channel
bioconda
--name
myenv"
# become: yes
# become_user: ubuntu
with_items
:
...
...
@@ -113,7 +113,7 @@
-
quast
# - name: activation de l'environnement conda pour l'utilisateur root
# shell: "/
opt/
bin/conda init bash"
# shell: "/
var/lib/miniconda3/conda
bin/conda init bash"
# become: yes
# become_user: ubuntu
...
...
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