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Update to Load-Sample-Cancer-Study.md #11288

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Update to Load-Sample-Cancer-Study.md #11288

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14 changes: 7 additions & 7 deletions docs/deployment/deploy-without-docker/Load-Sample-Cancer-Study.md
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Original file line number Diff line number Diff line change
Expand Up @@ -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
Expand All @@ -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:
Expand All @@ -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:
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