diff --git a/.github/workflows/chebi.yml b/.github/workflows/chebi.yml index d110aee0..fc46b13f 100644 --- a/.github/workflows/chebi.yml +++ b/.github/workflows/chebi.yml @@ -58,7 +58,7 @@ jobs: success=false while [ $retry_count -lt $max_retries ]; do - response=$(curl -o /dev/null -s -w "%{http_code}" "http://ftp.ebi.ac.uk/pub/databases/chebi/archive/rel${release}/SDF/ChEBI_complete_3star.sdf.gz") + response=$(curl -o /dev/null -s -w "%{http_code}" "http://ftp.ebi.ac.uk/pub/databases/chebi/archive/rel${release}/SDF/chebi_3_stars.sdf.gz") curl_exit_code=$? if [ $curl_exit_code -eq 0 ] && [ "$response" -eq 200 ]; then @@ -123,9 +123,9 @@ jobs: echo "CURRENT_RELEASE_NUMBER=$CURRENT_RELEASE_NUMBER" >> $GITHUB_ENV url_release="http://ftp.ebi.ac.uk/pub/databases/chebi/archive/rel$RELEASE_NUMBER/SDF/" echo "URL_RELEASE=$url_release" >> $GITHUB_ENV - wget "http://ftp.ebi.ac.uk/pub/databases/chebi/archive/rel${RELEASE_NUMBER}/SDF/ChEBI_complete_3star.sdf.gz" + wget "http://ftp.ebi.ac.uk/pub/databases/chebi/archive/rel${RELEASE_NUMBER}/SDF/chebi_3_stars.sdf.gz" ##Unzip gz file: - gunzip ChEBI_complete_3star.sdf.gz #TODO replace by config var + gunzip chebi_3_stars.sdf.gz #TODO replace by config var ##Check file size if available ls ##Print file size @@ -155,7 +155,7 @@ jobs: - name: Test SDF processing id: sdf_process run: | - inputFile="ChEBI_complete_3star.sdf" + inputFile="chebi_3_stars.sdf" mkdir new cd java mvn clean install assembly:single @@ -274,7 +274,7 @@ jobs: - name: 'Upload processed data as artifacts priIDs' uses: actions/upload-artifact@v4 with: - name: ChEBI_priIDs.tsv + name: ChEBI_priID.tsv path: datasources/chebi/recentData/ChEBI_priIDs.tsv - name: 'Upload processed data as artifacts secID2priID'