try and speed up testing cycle; work on geneontology/go-site#842

geneontology · Sep 23, 2019 · f3285f3 · f3285f3
1 parent d9535d1
commit f3285f3
Showing 1 changed file with 37 additions and 37 deletions.
diff --git a/Jenkinsfile b/Jenkinsfile
@@ -90,7 +90,7 @@ pipeline {
 	].join(" ")
 	GOLR_INPUT_GAFS = [
 	    //"http://skyhook.berkeleybop.org/master/products/annotations/paint_other.gaf.gz",
-	    "http://skyhook.berkeleybop.org/master/annotations/wb.gaf.gz"
+	    "http://skyhook.berkeleybop.org/master/annotations/sgn.gaf.gz"
 	].join(" ")
 	GOLR_INPUT_PANTHER_TREES = [
 	    "http://skyhook.berkeleybop.org/master/products/panther/arbre.tgz"
@@ -115,7 +115,7 @@ pipeline {
 	//GORULE_TAGS_TO_SUPPRESS="silent"
 
 	// Optional. Groups to run.
-	RESOURCE_GROUPS="wb"
+	RESOURCE_GROUPS="sgn"
 	// Optional. Datasets to skip within the resources that we
 	// will run (defined in the line above).
 	DATASET_EXCLUDES=""
@@ -397,41 +397,41 @@ pipeline {
 		// serve as input into into mega step.
 		script {
 
-		    dir('./noctua-models') {
-			git url: 'https://github.com/geneontology/noctua-models.git'
-
-			// Make all software products available in bin/
-			// (and lib/).
-			sh 'mkdir -p bin/'
-			sh 'mkdir -p lib/'
-			withCredentials([file(credentialsId: 'skyhook-private-key', variable: 'SKYHOOK_IDENTITY')]) {
-			    sh 'rsync -avz -e "ssh -o StrictHostKeyChecking=no -o IdentitiesOnly=true -o IdentityFile=$SKYHOOK_IDENTITY" skyhook@skyhook.berkeleybop.org:/home/skyhook/$BRANCH_NAME/bin/* ./bin/'
-			    // WARNING/BUG: needed for blazegraph-runner
-			    // to run at this point.
-            		    sh 'rsync -avz -e "ssh -o StrictHostKeyChecking=no -o IdentitiesOnly=true -o IdentityFile=$SKYHOOK_IDENTITY" skyhook@skyhook.berkeleybop.org:/home/skyhook/$BRANCH_NAME/lib/* ./lib/'
-			}
-			sh 'chmod +x bin/*'
-
-			// Compile models.
-			sh 'mkdir -p legacy/gpad'
-			withEnv(['MINERVA_CLI_MEMORY=128G']){
-			    // "Import" models.
-			    sh './bin/minerva-cli.sh --import-owl-models -f models -j blazegraph.jnl'
-			    // Convert GO-CAM to GPAD.
-			    sh './bin/minerva-cli.sh --lego-to-gpad-sparql --ontology $MINERVA_INPUT_ONTOLOGIES -i blazegraph.jnl --gpad-output legacy/gpad'
-			}
-
-			// Collation.
-			sh 'perl ./util/collate-gpads.pl legacy/gpad/*.gpad'
-
-			// Rename, compress, and move to skyhook.
-			sh 'mcp "legacy/*.gpad" "legacy/noctua_#1.gpad"'
-			sh 'gzip -vk legacy/noctua_*.gpad'
-			withCredentials([file(credentialsId: 'skyhook-private-key', variable: 'SKYHOOK_IDENTITY')]) {
-			    sh 'scp -o StrictHostKeyChecking=no -o IdentitiesOnly=true -o IdentityFile=$SKYHOOK_IDENTITY legacy/noctua_*.gpad.gz skyhook@skyhook.berkeleybop.org:/home/skyhook/$BRANCH_NAME/products/annotations/'
-			}
-		    }
-		}
+		//     dir('./noctua-models') {
+		// 	git url: 'https://github.com/geneontology/noctua-models.git'
+
+		// 	// Make all software products available in bin/
+		// 	// (and lib/).
+		// 	sh 'mkdir -p bin/'
+		// 	sh 'mkdir -p lib/'
+		// 	withCredentials([file(credentialsId: 'skyhook-private-key', variable: 'SKYHOOK_IDENTITY')]) {
+		// 	    sh 'rsync -avz -e "ssh -o StrictHostKeyChecking=no -o IdentitiesOnly=true -o IdentityFile=$SKYHOOK_IDENTITY" skyhook@skyhook.berkeleybop.org:/home/skyhook/$BRANCH_NAME/bin/* ./bin/'
+		// 	    // WARNING/BUG: needed for blazegraph-runner
+		// 	    // to run at this point.
+            	// 	    sh 'rsync -avz -e "ssh -o StrictHostKeyChecking=no -o IdentitiesOnly=true -o IdentityFile=$SKYHOOK_IDENTITY" skyhook@skyhook.berkeleybop.org:/home/skyhook/$BRANCH_NAME/lib/* ./lib/'
+		// 	}
+		// 	sh 'chmod +x bin/*'
+
+		// 	// Compile models.
+		// 	sh 'mkdir -p legacy/gpad'
+		// 	withEnv(['MINERVA_CLI_MEMORY=128G']){
+		// 	    // "Import" models.
+		// 	    sh './bin/minerva-cli.sh --import-owl-models -f models -j blazegraph.jnl'
+		// 	    // Convert GO-CAM to GPAD.
+		// 	    sh './bin/minerva-cli.sh --lego-to-gpad-sparql --ontology $MINERVA_INPUT_ONTOLOGIES -i blazegraph.jnl --gpad-output legacy/gpad'
+		// 	}
+
+		// 	// Collation.
+		// 	sh 'perl ./util/collate-gpads.pl legacy/gpad/*.gpad'
+
+		// 	// Rename, compress, and move to skyhook.
+		// 	sh 'mcp "legacy/*.gpad" "legacy/noctua_#1.gpad"'
+		// 	sh 'gzip -vk legacy/noctua_*.gpad'
+		// 	withCredentials([file(credentialsId: 'skyhook-private-key', variable: 'SKYHOOK_IDENTITY')]) {
+		// 	    sh 'scp -o StrictHostKeyChecking=no -o IdentitiesOnly=true -o IdentityFile=$SKYHOOK_IDENTITY legacy/noctua_*.gpad.gz skyhook@skyhook.berkeleybop.org:/home/skyhook/$BRANCH_NAME/products/annotations/'
+		// 	}
+		//     }
+		// }
 
 		// Legacy: build 'gaf-production'
 		dir('./go-site') {