diff --git a/docs/deployment/deploy-without-docker/Load-Sample-Cancer-Study.md b/docs/deployment/deploy-without-docker/Load-Sample-Cancer-Study.md index 37c653026de..14e166fcd2e 100644 --- a/docs/deployment/deploy-without-docker/Load-Sample-Cancer-Study.md +++ b/docs/deployment/deploy-without-docker/Load-Sample-Cancer-Study.md @@ -38,9 +38,9 @@ export PORTAL_HOME=/Users/johndoe/cbioportal The sample gene panel has to be imported before gene panel study data can be added to the database. ``` -cd cbioportal-core/src/main/resources/scripts -./importGenePanel.pl --data ../../test/scripts/test_data/study_es_0/data_gene_panel_testpanel1.txt -./importGenePanel.pl --data ../../test/scripts/test_data/study_es_0/data_gene_panel_testpanel2.txt +cd cbioportal-core/scripts +./importGenePanel.pl --data ../tests/test_data/study_es_0/data_gene_panel_testpanel1.txt +./importGenePanel.pl --data ../tests/test_data/study_es_0/data_gene_panel_testpanel2.txt ``` After loading gene panels into the database, please restart Tomcat or call the `/api/cache` endpoint with a `DELETE` http-request @@ -56,13 +56,13 @@ First it's useful to validate the study `study_es_0`, to check if the data is fo To do so, go to the importer folder: ``` -cd cbioprtal-core/src/main/scripts/importer +cd cbioprtal-core/scripts/importer ``` and then run the following command: ``` -./validateData.py -s ../../../test/scripts/test_data/study_es_0/ -n +./validateData.py -s ../../tests/test_data/study_es_0/ -n ``` If all goes well, you should see the final output message: @@ -76,13 +76,13 @@ Validation of study succeeded with warnings. To import the sample study: ``` -cd cbioportal-core/src/main/scripts/importer +cd cbioportal-core/scripts/importer ``` and then run the following command: ``` -./metaImport.py -s ../../../test/scripts/test_data/study_es_0/ -n -o +./metaImport.py -s ../../tests/test_data/study_es_0/ -n -o ``` You will see a series of output messages, hopefully ending with a status message like this: