Update README.md

README.md

@@ -3,7 +3,7 @@ Script to run the BLAST step included in OrthoFinder on a cluster (OGE)
 
 ## How it works
 
-You need to run OrthoFinder using the **-op** option, to **only prepare** the blast files. At the end it will output the commands required and print them on the screen. This script will catch those commands and submit them as multi-threaded blast jobs.
+You need to run OrthoFinder using the **-op** option, to **only prepare** the blast files. At the end OrthoFinder will print the required blastp commands to the screen. This script will catch those commands and submit them as individual jobs (multi-threaded).
 
 As such the clusters scheduler and queue is used, which is much more efficient than the one included in OrthoFinder. Also this allows the BLAST to run on multiple machines simultaniously.
 
@@ -14,3 +14,7 @@ As such the clusters scheduler and queue is used, which is much more efficient t
 Once the cluster is done performing all the BLASTs your should resume OrthoFinder using the command below
 
     orthofinder.py -b <BLAST_DIR>
+
+## Todo
+
+  * Replace hard-coded stuff (like name of the blast module and number of threads) with arguments