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Improvements to the Radial Range that Subhalo Density Profiles are Tabulated when Fitting TNFW Profile #152

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Improvements to the Radial Range that Subhalo Density Profiles are Tabulated when Fitting TNFW Profile

Improvements to the Radial Range that Subhalo Density Profiles are Tabulated when Fitting TNFW Profile #152

Workflow file for this run

.github/workflows/prChecks.yml at f7c2102
name: 'PR-Checks'
on:
workflow_dispatch:
pull_request:
types: [opened, reopened, synchronize]
branches:
- master
concurrency:
group: prCheck-${{ github.ref }}
cancel-in-progress: true
defaults:
run:
shell: bash
jobs:
# Validate YAML
Validate-YAML:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Install tools
run: |
sudo apt -y update
sudo apt install -y yamllint
- name: Get changed files
id: changed-files
uses: tj-actions/changed-files@v39
with:
files: |
**/*.yml
- name: Validate any YAML files
run: |
status=0
for file in ${{ steps.changed-files.outputs.all_changed_files }}; do
if yamllint $file; then
echo "YAML $file is valid"
else
echo "YAML $file is invalid"
status=1
fi
done
exit $status
# Validate XML
Validate-XML:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Install tools
run: |
sudo apt -y update
sudo apt install -y libxml2-utils
- name: Get changed files
id: changed-files
uses: tj-actions/changed-files@v39
with:
files: |
**/*.xml
- name: Validate any XML files
run: |
status=0
for file in ${{ steps.changed-files.outputs.all_changed_files }}; do
echo "Validating XML file: $file"
if xmllint --noout $file; then
echo "XML $file is valid"
else
echo "XML $file is invalid"
status=1
fi
done
exit $status
# Validate Perl scripts
Validate-Perl-Scripts:
runs-on: ubuntu-latest
container: ghcr.io/galacticusorg/buildenv:latest
steps:
- uses: actions/checkout@v4
- name: Check out repository analysis-perl
uses: actions/checkout@v4
with:
repository: galacticusorg/analysis-perl
path: analysis-perl
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
echo "GALACTICUS_ANALYSIS_PERL_PATH=$GITHUB_WORKSPACE/analysis-perl" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Get changed scripts
id: changed-scripts
uses: tj-actions/changed-files@v39
with:
files: |
**/*.pl
- name: Install tools
run: |
apt -y update
apt install -y libxml-simple-perl
- name: Validate any Perl scripts
run: |
status=0
for file in ${{ steps.changed-scripts.outputs.all_changed_files }}; do
if perl -c $file; then
echo "Perl script $file compiles correctly"
else
echo "Perl script $file fails to compile"
status=1
fi
if [[ -x $file ]]; then
echo "Perl script $file is executable"
else
echo "Perl script $file is not executable"
status=1
fi
done
exit $status
# Validate Perl modules
Validate-Perl-Modules:
runs-on: ubuntu-latest
container: ghcr.io/galacticusorg/buildenv:latest
steps:
- uses: actions/checkout@v4
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Get changed modules
id: changed-modules
uses: tj-actions/changed-files@v39
with:
files: |
**/*.pm
- name: Install tools
run: |
apt -y update
apt install -y libxml-simple-perl
- name: Validate any Perl modules
run: |
status=0
for file in ${{ steps.changed-modules.outputs.all_changed_files }}; do
if perl -c $file; then
echo "Perl module $file compiles correctly"
else
echo "Perl module $file fails to compile"
status=1
fi
done
exit $status
# Fortran static analysis
Fortran-Static-Analysis:
runs-on: ubuntu-latest
container: ghcr.io/galacticusorg/buildenv:latest
steps:
- uses: actions/checkout@v4
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Get changed files
id: changed-files
uses: tj-actions/changed-files@v39
with:
files: |
**/*.F90
- name: Perform static analysis on Fortran files
run: |
status=0
for file in ${{ steps.changed-files.outputs.all_changed_files }}; do
if ./scripts/aux/staticAnalyzer.pl $file; then
echo "Fortran file $file passes analysis"
else
echo "Fortran file $file fails analysis"
status=1
fi
done
exit $status
# Embedded XML and LaTeX checks
Embedded-XML-LaTeX:
runs-on: ubuntu-latest
container: ghcr.io/galacticusorg/buildenv:latest
steps:
- name: Check out repository code
uses: actions/checkout@v4
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
echo "DICTIONARY=en_US" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Install tools
run: |
apt -y update
apt install -y texlive texlive-latex-extra texlive-science texlive-extra-utils hunspell hunspell-en-us libxml-simple-perl libregexp-common-perl libfile-temp-perl
- name: Build class information
run: |
cd $GALACTICUS_EXEC_PATH
make -j2 work/build/stateStorables.xml
- name: Get changed files
id: changed-files
uses: tj-actions/changed-files@v39
with:
files: |
**/*.F90
**/*.Inc
- name: Perform checks of embedded XML and LaTeX
run: |
status=0
for file in ${{ steps.changed-files.outputs.all_changed_files }}; do
if ./scripts/aux/embeddedAnalyzer.pl $file warnings.md; then
echo "Embedded XML/LaTeX in file $file passes analysis"
else
echo "Embedded XML/LaTeX in file $file fails analysis"
status=1
fi
done
exit $status
- name: Check file existence
id: check_files
uses: andstor/file-existence-action@v2
with:
files: warnings.md
- name: Comment on the PR if any warnings were found
if: steps.check_files.outputs.files_exists == 'true'
uses: thollander/actions-comment-pull-request@v2
with:
filePath: warnings.md
# Spell check LaTeX files
Spell-Check-LaTeX:
runs-on: ubuntu-latest
container: ghcr.io/galacticusorg/buildenv:latest
steps:
- name: Check out repository code
uses: actions/checkout@v4
- name: "Set environmental variables"
run: |
echo "GALACTICUS_EXEC_PATH=$GITHUB_WORKSPACE" >> $GITHUB_ENV
echo "DICTIONARY=en_US" >> $GITHUB_ENV
- name: Mark directory safe
run: |
git config --global --add safe.directory $GALACTICUS_EXEC_PATH
- name: Install tools
run: |
apt -y update
apt install -y texlive texlive-latex-extra texlive-science texlive-extra-utils hunspell hunspell-en-us libxml-simple-perl libregexp-common-perl libfile-temp-perl
- name: Build class information
run: |
cd $GALACTICUS_EXEC_PATH
make -j2 work/build/stateStorables.xml
- name: Get changed files
id: changed-files
uses: tj-actions/changed-files@v39
with:
files: |
**/*.tex
- name: Perform checks of LaTeX files
run: |
status=0
for file in ${{ steps.changed-files.outputs.all_changed_files }}; do
./scripts/aux/spellChecker.pl $file warnings.md
done
- name: Check file existence
id: check_files
uses: andstor/file-existence-action@v2
with:
files: warnings.md
- name: Comment on the PR if any warnings were found
if: steps.check_files.outputs.files_exists == 'true'
uses: thollander/actions-comment-pull-request@v2
with:
filePath: warnings.md