Error while installing hmmer with Cygwin64

[phantasm-21]

I was downloading hmmer using Cygwin64
Following the downloading steps I reached the step of the command "Make". It runs. Then when I do "Make check" the following errors occurs.

make[2]: ./../devkit/sqc: No such file or directory
make[2]: * [Makefile:34: check] Error 127
make[1]: * [Makefile:544: check] Error 2
make: * [Makefile:117: check] Error 2

and Suppose I ignore the make check step( it was optional as per the video I was following), later I faced "hmmbuild error" were it says no such command found. Please help me out. Thank You.

[npcarter]

Hello. We don't officially support HMMER on Windows, so I don't have concrete answers for you. The errors you're getting suggest that something has gone wrong in the process of building HMMER (make), but it's tough to tell what. Other people have had trouble getting HMMER to build on Cygwin, so it's not surprising that you're having problems. We have had better luck getting HMMER to build and run under Windows Subsystem for Linux (WSL). Typically, that just requires setting up WSL and installing the base development packages to get HMMER to build and run.

…

-Nick

On Thu, Jan 16, 2025 at 1:09 PM phantasm-21 ***@***.***> wrote: I was downloading hmmer using Cygwin64 Following the downloading steps I reached the step of the command "Make". It runs. Then when I do "Make check" the following errors occurs. make[2]: ./../devkit/sqc: No such file or directory make[2]: * [Makefile:34: check] Error 127 make[1]: * [Makefile:544: check] Error 2 make: * [Makefile:117: check] Error 2 and Suppose I ignore the make check step( it was optional as per the video I was following), later I faced "hmmbuild error" were it says no such command found. Please help me out. Thank You. — Reply to this email directly, view it on GitHub <#336>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABDJBZH5DRLMCQ3G3XYNAXT2K7YWXAVCNFSM6AAAAABVKGZ6Q6VHI2DSMVQWIX3LMV43ASLTON2WKOZSG44TGNBSG44TMMI> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[cryptogenomicon]

The failure in make check is likely because you don't have Perl installed. The sqc script to run our automated tests is a Perl script. The make check is optional though, as you say, so you can just ignore this error.

If you get command not found, that's because hmmbuild (or whatever program is not found) is not in your ${PATH}, or whatever the Windows equivalent is. That's not a HMMER-specific question. However you run executable programs on your system (and wherever you install them), that's what you want to do with the HMMER programs too.

(HMMER should actually work fine under Cygwin, but as Nick said, we'd recommend using the WSL instead for HMMER on Windows systems.)