Ignore docs folder for assembler tests

ablab · Apr 16, 2024 · d8dd03b · d8dd03b
1 parent d09abf8
commit d8dd03b
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Showing 13 changed files with 45 additions and 22 deletions.
diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml
@@ -9,7 +9,11 @@ on:
       - next
     tags:
       - '*'
+    paths-ignore:
+      - 'docs/**'
   pull_request:
+    paths-ignore:
+      - 'docs/**'
 
 env:
   BUILD_TYPE: Release

diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml
@@ -3,10 +3,12 @@ name: docs
 on:
   push:
     branches:
-      - master 
+      - master
       - main
       - next
-
+    paths:
+      - 'docs/**'
+
 permissions:
   contents: write
 
@@ -22,12 +24,12 @@ jobs:
       - uses: actions/setup-python@v5
         with:
           python-version: 3.x
-      - run: echo "cache_id=$(date --utc '+%V')" >> $GITHUB_ENV 
+      - run: echo "cache_id=$(date --utc '+%V')" >> $GITHUB_ENV
       - uses: actions/cache@v4
         with:
           key: mkdocs-material-${{ env.cache_id }}
           path: .cache
           restore-keys: |
             mkdocs-material-
-      - run: pip install mkdocs-material 
+      - run: pip install mkdocs-material
       - run: mkdocs gh-deploy --force
diff --git a/.github/workflows/full_runs.yml b/.github/workflows/full_runs.yml
@@ -123,4 +123,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/spades_tests/FR_E.coli_UCSD_lane1.info
-
diff --git a/.github/workflows/gcc.yml b/.github/workflows/gcc.yml
@@ -2,6 +2,9 @@ name: SPAdes GCC & Python versions
 
 on:
   workflow_dispatch:
+  pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
@@ -44,7 +47,7 @@ jobs:
           cmake
           -B ${{env.BUILD_DIR}}
           -S ${{env.SRC_DIR}}
-          -DCMAKE_C_COMPILER=gcc-9 -DCMAKE_CXX_COMPILER=g++-9 
+          -DCMAKE_C_COMPILER=gcc-9 -DCMAKE_CXX_COMPILER=g++-9
           -DCMAKE_C_COMPILER_LAUNCHER=sccache -DCMAKE_CXX_COMPILER_LAUNCHER=sccache
           -DCMAKE_INSTALL_PREFIX=${{env.INSTALL_DIR}}
           -DCPACK_PACKAGE_FILE_NAME=SPAdes-GCC9-Linux
@@ -75,7 +78,7 @@ jobs:
           set -e &&
           shopt -s dotglob &&
           rm -rf *
-      
+
       - name: '📦 Download package'
         uses: actions/download-artifact@v3
         with:
@@ -117,7 +120,7 @@ jobs:
           cmake
           -B ${{env.BUILD_DIR}}
           -S ${{env.SRC_DIR}}
-          -DCMAKE_C_COMPILER=gcc-10 -DCMAKE_CXX_COMPILER=g++-10 
+          -DCMAKE_C_COMPILER=gcc-10 -DCMAKE_CXX_COMPILER=g++-10
           -DCMAKE_C_COMPILER_LAUNCHER=sccache -DCMAKE_CXX_COMPILER_LAUNCHER=sccache
           -DCMAKE_INSTALL_PREFIX=${{env.INSTALL_DIR}}
           -DCPACK_PACKAGE_FILE_NAME=SPAdes-GCC10-Linux
@@ -148,7 +151,7 @@ jobs:
           set -e &&
           shopt -s dotglob &&
           rm -rf *
-      
+
       - name: '📦 Download package'
         uses: actions/download-artifact@v3
         with:
@@ -190,7 +193,7 @@ jobs:
           cmake
           -B ${{env.BUILD_DIR}}
           -S ${{env.SRC_DIR}}
-          -DCMAKE_C_COMPILER=gcc -DCMAKE_CXX_COMPILER=g++ 
+          -DCMAKE_C_COMPILER=gcc -DCMAKE_CXX_COMPILER=g++
           -DCMAKE_C_COMPILER_LAUNCHER=sccache -DCMAKE_CXX_COMPILER_LAUNCHER=sccache
           -DCMAKE_INSTALL_PREFIX=${{env.INSTALL_DIR}}
           -DCPACK_PACKAGE_FILE_NAME=SPAdes-GCC11-Linux
@@ -221,7 +224,7 @@ jobs:
           set -e &&
           shopt -s dotglob &&
           rm -rf *
-      
+
       - name: '📦 Download package'
         uses: actions/download-artifact@v3
         with:
@@ -294,7 +297,7 @@ jobs:
           set -e &&
           shopt -s dotglob &&
           rm -rf *
-      
+
       - name: '📦 Download package'
         uses: actions/download-artifact@v3
         with:
@@ -367,7 +370,7 @@ jobs:
           set -e &&
           shopt -s dotglob &&
           rm -rf *
-      
+
       - name: '📦 Download package'
         uses: actions/download-artifact@v3
         with:
@@ -380,4 +383,3 @@ jobs:
       - name: 'E.coli 1K Isolate with Python 3.13'
         run: >
           python3.12 ${{env.INSTALL_DIR}}/${{env.PKG}}/bin/spades.py --test --isolate
-
diff --git a/.github/workflows/iontorrent.yml b/.github/workflows/iontorrent.yml
@@ -2,12 +2,15 @@ name: SPAdes IonTorrent datasets tests
 
 on:
   workflow_dispatch:
+  pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
   schedule:
     - cron: '0 3 14,28 * *'
-    
+
 env:
   BUILD_TYPE: Release
   BUILD_DIR: ${{github.workspace}}/build
@@ -123,4 +126,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/spades_tests/IT_PB_E.coli.info
-
diff --git a/.github/workflows/isolated.yml b/.github/workflows/isolated.yml
@@ -3,6 +3,8 @@ name: SPAdes isolated datasets tests
 on:
   workflow_dispatch:
   pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'

diff --git a/.github/workflows/long_reads.yml b/.github/workflows/long_reads.yml
@@ -3,6 +3,8 @@ name: SPAdes long-read tests
 on:
   workflow_dispatch:
   pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'

diff --git a/.github/workflows/mate_pairs.yml b/.github/workflows/mate_pairs.yml
@@ -3,6 +3,8 @@ name: SPAdes mate-pairs tests
 on:
   workflow_dispatch:
   pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
@@ -252,7 +254,7 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/spades_tests/NX_R.sphaeroides.info
-          
+
   mp-ssmaragdinae:
     name: 'Mate-pairs S.smaragdinae quaked'
     runs-on: self-hosted
@@ -284,4 +286,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/spades_tests/MP_S.smaragdinae_quake.info
-
diff --git a/.github/workflows/meta.yml b/.github/workflows/meta.yml
@@ -3,6 +3,8 @@ name: metaSPAdes tests
 on:
   workflow_dispatch:
   pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
@@ -284,4 +286,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/meta_tests/SYNTH_64_SUB_0p2.info
-
diff --git a/.github/workflows/rna.yml b/.github/workflows/rna.yml
@@ -3,6 +3,8 @@ name: rnaSPAdes tests
 on:
   workflow_dispatch:
   pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
@@ -220,4 +222,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/rna_tests/CELEGANS_RNA_FL.info
-
diff --git a/.github/workflows/single_cell.yml b/.github/workflows/single_cell.yml
@@ -3,6 +3,8 @@ name: SPAdes single-cell datasets tests
 on:
   workflow_dispatch:
   pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
@@ -348,4 +350,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/spades_tests/SC_SE_P.marinus.info
-
diff --git a/.github/workflows/sra.yml b/.github/workflows/sra.yml
@@ -2,6 +2,9 @@ name: SPAdes SRA input
 
 on:
   workflow_dispatch:
+  pull_request:
+    paths-ignore:
+      - 'docs/**'
   push:
     tags:
       - '*'
@@ -92,4 +95,3 @@ jobs:
           --spades_path ${{env.INSTALL_DIR}}/${{env.PKG}}/bin
           --no_contig_archive
           /data/pipeline_tests/SRA_C.trachomatis.info
-
diff --git a/.github/workflows/usecases.yml b/.github/workflows/usecases.yml
@@ -9,7 +9,11 @@ on:
       - next
     tags:
       - '*'
+    paths-ignore:
+      - 'docs/**'
   pull_request:
+    paths-ignore:
+      - 'docs/**'
 
 env:
   BUILD_TYPE: Release