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Commit 47540f11 authored by bauer12's avatar bauer12 :crying_cat_face:
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......@@ -123,7 +123,7 @@ Uploading a study can be initiated with the following call and by replacing # wi
docker-compose exec tmbatch /opt/git/transmart-batch/transmart-batch.jar -c /opt/git/transmart-batch/batchdb.properties -n -p #
```
Please refer to the documentation of transmart-batch on how to set-up and upload your data. Your data will be automatically uploaded if you zip a full transmart-batch structure ([example](https://github.com/thehyve/transmart-batch/tree/master/studies/GSE20690)) as "STUDYID.zip" (where STUDYID is the actual ID ) and copy it directly into the named docker volumne "tm_opt" from your host system to the folder. This folder can noramly be found at:
Please refer to the documentation of transmart-batch on how to set-up and upload your data. Your data will be automatically uploaded if you zip a full transmart-batch structure ([example](https://github.com/thehyve/transmart-batch/tree/master/studies/GSE20690)) as "STUDYID.zip" (where STUDYID is the actual ID) and copy it directly into the named docker volumne "tm_opt" from your host system to the folder. This folder can normally be found at:
```
/var/lib/docker/volumes/tm_umg_tm_opt/_data/data/incoming
```
......@@ -178,11 +178,6 @@ And this link can be lost in the copying process, but needs to be existend:
/var/lib/docker/volumes/tmumg_tm_postgresdatad/_data/9.3/main/pg_tblspc# cp -d * /var/lib/docker/volumes/tmumg_tm_postgresdata/_data/9.3/main/pg_tblspc
```
### Loading your own studies
If you have a study prepared in a suitable format you can use the `tmbatch` container to load this as well. There is a manual describing the file formats available on [GitHub](https://github.com/thehyve/transmart-batch), under the 'docs' section. The following tutorial will show you how to load clinical data.
TODO :banana:
### Database changes ###
......
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