Improve README

README.md

@@ -1,9 +1,25 @@
-Run with:
+# [PomBase](/pombase) code for processing domains
+
+This program processes the `match_complete.xml.gz` from InterPro
+and also runs [TMHMM](https://services.healthtech.dtu.dk/services/TMHMM-2.0/)
+to generate a JSON of domain information.
+
+The latest InterPro file is available from: https://ftp.ebi.ac.uk/pub/databases/interpro/current_release/
+
+UniProt IDs for pombe proteins are queried from PostgreSQL.  Those IDs are
+used to filter the InterPro file.
 
-    /var/pomcur/bin/pombase-interpro -p "postgres://<username>:<password>@localhost/<dbname>" \
-        -i <(gzip -d < match_complete.xml.gz) -o pombe_interpro_results.json
+Protein sequences are queried from PostgreSQL and are passed to TMHMM.
+We run TMHMM in a separate thread while the InterPro XML is parsed and
+processed.
+
+## Running
+
+Run with:
 
-in: /var/pomcur/sources/interpro/
+    PATH=$PATH_TO_TMHMM_EXE:$PATH /var/pomcur/bin/pombase-interpro \
+        -p "postgres://<username>:<password>@localhost/<dbname>" \
+        -i <(gzip -d < match_complete.xml.gz) -o pombe_domain_results.json
 
 
 ## Status