Hi,
I'm running into some issues when attempting to build the following modules;
M00009, M00023, M00026, M00087, M00089, M000173, M000308, M000362, M000611 -> M00614, M000616->M000618, M000633.

make kegg_modules/M00611/models.hmm.h3p
mkdir kegg_modules/M00611
cat  > kegg_modules/M00611/models.hmm
rm kegg_modules/M00611/models.hmm.*
rm: cannot remove ‘kegg_modules/M00611/models.hmm.*’: No such file or directory
make: [kegg_modules/M00611/models.hmm.h3p] Error 1 (ignored)
hmmpress kegg_modules/M00611/models.hmm

Error: File format problem in trying to open HMM file kegg_modules/M00611/models.hmm.
File exists, but appears to be empty?

make: *** [kegg_modules/M00611/models.hmm.h3p] Error 1
rm kegg_modules/M00611/models.hmm

I believe this may be due to data being unavailable from the KEGG API, but was wondering if you had a workaround for this?

Kindest,
Miguel Boland

Great tool! This has saved me a lot of time building a couple HMM profiles.
I would like to make a suggestion to keep the protein fasta file for then testing the HMM profile against those sequences to figure out a cutoff range for use with other sequences. For now I've just copied the protein file to another location while the Makefile is running.