hhmake(1) on Linux
The text 85791b90792e, as Debian 7 (Wheezy) shipped it.
build an HMM from an input alignment or convert between HMMER format and HHsearch format
Flags it lists
-
-M -
-a -
-cons -
-cov -
-cslib -
-diff -
-i -
-id -
-name -
-neff -
-nocontxt -
-o -
-pca -
-pcb -
-pcc -
-pcm -
-pre_pca -
-qid -
-qsc -
-seq -
-v