glygener / glygen-issues

Repository for public GlyGen tickets
GNU General Public License v3.0
0 stars 0 forks source link

Can you please share the documentation for literature mining pipeline installation #799

Open sujeetvkulkarni opened 1 year ago

rykahsay commented 1 year ago

Even though Dacian increased the power of our aws instance and it seems to be working for me as well, I still want you to try it on your own server so that we can compare our results.

Download the tarball https://data.glygen.org/ftp/udel/udel_pipeline/udel.tar.gz and follow the instructions in the README file which you will find after you unpack the tarball. The data available in the tarball is only for testing purposes. If this works for you, the files shown below should be non-empty. Once this works for you, I will give you real data for 30K PMIDs.

$ wc litmining/glygen_set_new_site_fusion_output.tsv
2 10 83 litmining/glygen_set_new_site_fusion_output.tsv
$ wc litmining/glygen_set_new_site_fusion_output_contain_empty_site.tsv 
 15  40 403 litmining/glygen_set_new_site_fusion_output_contain_empty_site.tsv