Merge pull request #4766 from galaxyproject/magellanic-galaxy

Fix commit cache GH action

_plugins/gtn/mod.rb

@@ -39,8 +39,9 @@ def self.generate_cache
         File.write("metadata/git-mod-#{rev}.txt", command)
       else
         prev = discover_caches
-        File.write("metadata/git-mod-#{rev}.txt", cached_command)
+        results = cached_command
         File.delete(prev)
+        File.write("metadata/git-mod-#{rev}.txt", results)
       end
     end
 
@@ -147,8 +148,9 @@ def self.generate_cache
         File.write("metadata/git-pub-#{rev}.txt", command)
       else
         prev = discover_caches
-        File.write("metadata/git-pub-#{rev}.txt", cached_command)
+        results = cached_command
         File.delete(prev)
+        File.write("metadata/git-pub-#{rev}.txt", results)
       end
     end
 

bin/commit-cache-update.rb

@@ -1,11 +1,6 @@
-require './_plugins/gtn'
+require 'jekyll'
+require './_plugins/gtn/mod.rb'
 
 # Write the commit log
 Gtn::ModificationTimes.generate_cache
 Gtn::PublicationTimes.generate_cache
-
-# Gziped?
-# require 'zlib'
-# File.write("metadata/git-mod-#{rev}.txt.gz", Zlib.gzip(Gtn::ModificationTimes.command))
-# File.write("metadata/git-pub-#{rev}.txt.gz", Zlib.gzip(Gtn::PublicationTimes.command))
-# p Gtn::ModificationTimes.discover_caches

metadata/git-mod-980e16de5c1d2c6621c3ca488f534da270fab1e2.txt → metadata/git-mod-0e10fcf163b914ce1837f087eec1cd0066c0e7e3.txt

@@ -1,3 +1,135 @@
+GTN_GTN:1709543759
+GTN_GTN:1709542527
+GTN_GTN:1709514490
+
+metadata/shortlinks.yaml
+GTN_GTN:1709498003
+
+topics/galaxy-interface/tutorials/galaxy-intro-jupyter/tutorial.md
+GTN_GTN:1709213843
+GTN_GTN:1709212100
+
+_plugins/jekyll-topic-filter.rb
+news/_posts/2024-02-29-new-gmod-topic.md
+GTN_GTN:1709211762
+
+bin/schema-topic.yaml
+news/_posts/2024-02-29-new-gmod-topic.md
+topics/contributing/tutorials/create-new-topic/tutorial.md
+GTN_GTN:1709210985
+
+_plugins/jekyll-topic-filter.rb
+GTN_GTN:1709210983
+
+metadata/gmod.yaml
+GTN_GTN:1709210982
+
+_plugins/jekyll-topic-filter.rb
+GTN_GTN:1709210980
+
+_plugins/jekyll-topic-filter.rb
+topics/genome-annotation/tutorials/bacterial-genome-annotation/tutorial.md
+GTN_GTN:1709210979
+
+_layouts/home.html
+GTN_GTN:1709210977
+
+topics/assembly/tutorials/chloroplast-assembly/tutorial.md
+topics/genome-annotation/tutorials/bacterial-genome-annotation/tutorial.md
+GTN_GTN:1709210975
+
+topics/microbiome/metadata.yaml
+GTN_GTN:1709210974
+
+_layouts/home.html
+bin/schema-topic.yaml
+learning-pathways/clinical-metaproteomics.md
+metadata/covid19.yaml
+metadata/one-health.yaml
+topics/ai4life/metadata.yaml
+topics/assembly/metadata.yaml
+topics/climate/metadata.yaml
+topics/computational-chemistry/metadata.yaml
+topics/ecology/metadata.yaml
+topics/epigenetics/metadata.yaml
+topics/evolution/metadata.yaml
+topics/galaxy-interface/tutorials/intermine/tutorial.md
+topics/genome-annotation/metadata.yaml
+topics/imaging/metadata.yaml
+topics/materials-science/metadata.yaml
+topics/metabolomics/metadata.yaml
+topics/microbiome/metadata.yaml
+topics/proteomics/metadata.yaml
+topics/sequence-analysis/metadata.yaml
+topics/single-cell/metadata.yaml
+topics/statistics/metadata.yaml
+topics/synthetic-biology/metadata.yaml
+topics/transcriptomics/metadata.yaml
+topics/variant-analysis/metadata.yaml
+topics/visualisation/metadata.yaml
+GTN_GTN:1709210972
+
+_plugins/jekyll-topic-filter.rb
+topics/genome-annotation/tutorials/official-gene-set/tutorial.md
+GTN_GTN:1709210970
+
+_plugins/jekyll-topic-filter.rb
+GTN_GTN:1709210969
+
+assets/images/GMOD-cogs.png
+topics/genome-annotation/tutorials/annotation-with-maker/tutorial.md
+GTN_GTN:1709210967
+
+topics/assembly/tutorials/chloroplast-assembly/tutorial.md
+topics/assembly/tutorials/ecoli_comparison/tutorial.md
+topics/assembly/tutorials/mrsa-nanopore/tutorial.md
+topics/galaxy-interface/tutorials/intermine/tutorial.md
+topics/genome-annotation/tutorials/amr-gene-detection/tutorial.md
+topics/genome-annotation/tutorials/annotation-with-maker-short/tutorial.md
+topics/genome-annotation/tutorials/annotation-with-maker/tutorial.md
+topics/genome-annotation/tutorials/annotation-with-prokka/tutorial.md
+topics/genome-annotation/tutorials/apollo-euk/tutorial.md
+topics/genome-annotation/tutorials/apollo/tutorial.md
+topics/genome-annotation/tutorials/bacterial-genome-annotation/tutorial.md
+topics/genome-annotation/tutorials/funannotate/tutorial.md
+topics/genome-annotation/tutorials/official-gene-set/tutorial.md
+topics/sequence-analysis/tutorials/sars-with-galaxy-on-anvil/tutorial.md
+topics/variant-analysis/tutorials/microbial-variants/tutorial.md
+topics/visualisation/tutorials/jbrowse/tutorial.md
+GTN_GTN:1709209808
+GTN_GTN:1709209300
+
+short/galaxy.html
+GTN_GTN:1709208178
+
+_plugins/gtn.rb
+_plugins/gtn/mod.rb
+_plugins/jekyll-topic-filter.rb
+bin/list-recently-published.rb
+GTN_GTN:1709208057
+
+_plugins/gtn/mod.rb
+bin/list-recently-modified.rb
+bin/list-recently-published.rb
+GTN_GTN:1709204321
+
+short/galaxy.html
+GTN_GTN:1709204315
+
+_plugins/jekyll-topic-filter.rb
+GTN_GTN:1709131243
+
+_plugins/jekyll-topic-filter.rb
+GTN_GTN:1709110457
+
+_plugins/jekyll-tool-tag.rb
+GTN_GTN:1708960754
+
+.github/workflows/cron-commit-cache.yml
+GTN_GTN:1708960469
+
+metadata/git-mod-980e16de5c1d2c6621c3ca488f534da270fab1e2.txt
+metadata/git-pub-980e16de5c1d2c6621c3ca488f534da270fab1e2.txt
 GTN_GTN:1708960403
 
 .github/workflows/deploy.yml
@@ -14,6 +146,24 @@ bin/commit-cache-update.rb
 GTN_GTN:1708946427
 
 bin/list-recently-modified.rb
+GTN_GTN:1708937732
+GTN_GTN:1708931575
+GTN_GTN:1708930821
+GTN_GTN:1708909698
+
+metadata/shortlinks.yaml
+GTN_GTN:1708902996
+
+topics/genome-annotation/images/bgc_screening/Selection_111.png
+topics/genome-annotation/images/bgc_screening/borrelidin.png
+topics/genome-annotation/images/bgc_screening/compound.png
+topics/genome-annotation/images/bgc_screening/flowchart.drawio.png
+GTN_GTN:1708819484
+
+topics/ecology/tutorials/Metashrimps_tutorial/tutorial.md
+GTN_GTN:1708819469
+
+topics/ecology/tutorials/Metashrimps_tutorial/tutorial.md
 GTN_GTN:1708601697
 GTN_GTN:1708600348
 
@@ -145,6 +295,9 @@ assets/images/oembed.png
 shared/images/logo-vib.png
 topics/single-cell/images/scrna-data/HCA.jpg
 topics/single-cell/images/scrna-data/exp_id.jpg
+GTN_GTN:1708121008
+
+topics/ecology/tutorials/Metashrimps_tutorial/tutorial.md
 GTN_GTN:1708092257
 
 CONTRIBUTORS.yaml

metadata/git-pub-980e16de5c1d2c6621c3ca488f534da270fab1e2.txt → metadata/git-pub-0e10fcf163b914ce1837f087eec1cd0066c0e7e3.txt

@@ -1,3 +1,16 @@
+GTN_GTN:1709213843
+
+A	assets/images/GMOD-cogs.png
+A	metadata/gmod.yaml
+A	news/_posts/2024-02-29-new-gmod-topic.md
+GTN_GTN:1709209808
+
+A	.github/workflows/cron-commit-cache.yml
+A	bin/commit-cache-update.rb
+A	bin/list-recently-modified.rb
+A	bin/list-recently-published.rb
+A	metadata/git-mod-980e16de5c1d2c6621c3ca488f534da270fab1e2.txt
+A	metadata/git-pub-980e16de5c1d2c6621c3ca488f534da270fab1e2.txt
 GTN_GTN:1708524512
 
 A	topics/genome-annotation/images/bgc_screening/Ampicillin_Structural_Formulae_V.1.svg.png