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new Groovy-based tranSMART ETL
This project forked from clarivate-lsps/tmdataloader
new Groovy-based tranSMART ETL
These instructions:
Go to tMDataLoader repository and run following commands:
psql -d transmart -f sql/postgres/migrations.sql
psql -d transmart -f sql/postgres/permissions.sql
psql -d transmart -f sql/postgres/procedures.sql
do not work.
This works:
cd sql/postgres
psql -d transmart -f migrations.sql
...
Hello,
I noticed that after applying the DB patches for Postgres (migrations.sql etc...) the
https://github.com/transmart/transmart-data upload process of sample datasets do not work anymore.
I mean the
make -C samples/{oracle,postgres} load_clinical_GSE8581
make -C samples/{oracle,postgres} load_ref_annotation_GSE8581
make -C samples/{oracle,postgres} load_expression_GSE8581
stuff
Please ask if you need more information, I will relaunch the whole process.
In the tutorial v1.5, it is mentioned that genotype calls can be downloaded using a calls text file.
In v2.1, I see no mention of SNP data...
So my question is: is-it possible, useful, recommended to upload a whole GWAS genotype data ?
Thanks
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