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Gilligan Lab for Epidemiology and Modelling
Wheat rusts
ews-coordinator
Commits
351c6058
Commit
351c6058
authored
4 months ago
by
L. Bower
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experimenting with new setup for pages
parent
1766629d
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2 changed files
.gitlab-ci.yml
+13
-13
13 additions, 13 deletions
.gitlab-ci.yml
docs/api.rst
+1
-1
1 addition, 1 deletion
docs/api.rst
with
14 additions
and
14 deletions
.gitlab-ci.yml
+
13
−
13
View file @
351c6058
...
@@ -47,13 +47,13 @@ stages:
...
@@ -47,13 +47,13 @@ stages:
-
python3 -V
# Print out python version for debugging
-
python3 -V
# Print out python version for debugging
-
mkdir -p $PACKAGES_DIR
-
mkdir -p $PACKAGES_DIR
-
mkdir -p $OUTPUT_DIR
-
mkdir -p $OUTPUT_DIR
-
git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-source-generation.git" $PACKAGES_DIR/source_gen
#
- git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-source-generation.git" $PACKAGES_DIR/source_gen
-
git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_plotting.git" $PACKAGES_DIR/plotting
#
- git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_plotting.git" $PACKAGES_DIR/plotting
-
git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-epimodel.git" $PACKAGES_DIR/epimodel
#
- git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-epimodel.git" $PACKAGES_DIR/epimodel
-
git clone -b main "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-advisory-builder.git" $PACKAGES_DIR/advisory_builder
#
- git clone -b main "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-advisory-builder.git" $PACKAGES_DIR/advisory_builder
-
git clone -b main "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_environmental_suitability_v2.git" $PACKAGES_DIR/environmental_suitability
#
- git clone -b main "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews_environmental_suitability_v2.git" $PACKAGES_DIR/environmental_suitability
-
git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-postprocessing.git" $PACKAGES_DIR/post_processing
#
- git clone -b $BRANCH "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-postprocessing.git" $PACKAGES_DIR/post_processing
-
git clone -b main "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-met-processing.git" $PACKAGES_DIR/met_processing
#
- git clone -b main "https://nouser:$GROUP_WHEAT_ACCESS_VAR@gitlab.developers.cam.ac.uk/gilligan-epid/wheat-rusts/ews-met-processing.git" $PACKAGES_DIR/met_processing
-
epimodel=$PACKAGES_DIR/epimodel
-
epimodel=$PACKAGES_DIR/epimodel
-
advisory=$PACKAGES_DIR/advisory_builder
-
advisory=$PACKAGES_DIR/advisory_builder
-
met_processing=$PACKAGES_DIR/met_processing
-
met_processing=$PACKAGES_DIR/met_processing
...
@@ -63,13 +63,13 @@ stages:
...
@@ -63,13 +63,13 @@ stages:
-
source_gen=$PACKAGES_DIR/source_gen
-
source_gen=$PACKAGES_DIR/source_gen
-
coordinator=$CI_PROJECT_DIR
-
coordinator=$CI_PROJECT_DIR
-
coordinator_tests=$CI_PROJECT_DIR/tests
-
coordinator_tests=$CI_PROJECT_DIR/tests
-
export PYTHONPATH=$PYTHONPATH:$
met_processor_temp:$epimodel:$advisory:$met_processing:$met_processor:$plotting:$source_gen:$post_processing:$
coordinator:$coordinator_tests
-
export PYTHONPATH=$PYTHONPATH:$coordinator:$coordinator_tests
-
echo "pythonpath - " $PYTHONPATH
-
echo "pythonpath - " $PYTHONPATH
-
ls $PACKAGES_DIR
-
ls $PACKAGES_DIR
half_fat_tests
:
half_fat_tests
:
when
:
always
when
:
manual
stage
:
half-fat
stage
:
half-fat
extends
:
.before_script
extends
:
.before_script
...
@@ -336,16 +336,16 @@ pages:
...
@@ -336,16 +336,16 @@ pages:
extends
:
.before_script
extends
:
.before_script
script
:
script
:
-
export PATH=$PATH:/home/ewsmanager/.local/bin
-
export PATH=$PATH:/home/ewsmanager/.local/bin
-
echo "Pages accessible through ${CI_PAGES_URL}
/
${PAGES_PREFIX}"
-
echo "Pages accessible through ${CI_PAGES_URL}
/
${PAGES_PREFIX}"
-
pip install sphinx
-
pip install sphinx
-
pip install sphinx_rtd_theme
-
pip install sphinx_rtd_theme
-
pip install sphinx_autodoc_typehints
-
pip install sphinx_autodoc_typehints
-
pip install IPython
-
pip install IPython
-
cd $CI_PROJECT_DIR/docs
-
cd $CI_PROJECT_DIR/docs
-
make html
-
make html
-
mkdir $CI_PROJECT_DIR/
public
-
mkdir $CI_PROJECT_DIR/
something
-
mv -v $CI_PROJECT_DIR/docs/_build/html/* $CI_PROJECT_DIR/
public
/
-
mv -v $CI_PROJECT_DIR/docs/_build/html/* $CI_PROJECT_DIR/
something
/
-
ls $CI_PROJECT_DIR/
public
/
-
ls $CI_PROJECT_DIR/
something
/
artifacts
:
artifacts
:
paths
:
paths
:
-
public
-
public
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docs/api.rst
+
1
−
1
View file @
351c6058
...
@@ -6,7 +6,7 @@ API
...
@@ -6,7 +6,7 @@ API
:template: custom-module-template.rst
:template: custom-module-template.rst
:recursive:
:recursive:
ews.coordinator
..
ews.coordinator
ews.plotting
ews.plotting
ews.postprocessing
ews.postprocessing
ews.met_processing
ews.met_processing
...
...
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