Installation issue htslib/sam.h

smithlabcode / methpipe

A pipeline for analyzing DNA methylation data from bisulfite sequencing.

http://smithlabresearch.org/methpipe

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Installation issue htslib/sam.h #194

Closed simiro closed 2 years ago

simiro commented 2 years ago

Hi, I've been trying to install methpipe on our hpc. I have installed both GSL and HTSLIB.

I set prefix, LDFLAGS and CPPFLAGS during configuration and then make fives me the following error:

The file (sam.h) does exist.

Any pointer on getting this to run are much appreciated :)

terencewtli commented 2 years ago

Hi,

Could you show how you set LDFLAGS and CPPFLAGS and what's in those directories? As well as where you installed GSL and HTSLIB.

andrewdavidsmith commented 2 years ago

@simiro can you indicate which release you are using?

simiro commented 2 years ago

Thank you for your response. Actually I unpacked the methpipe 5.0 tarball again and started "from scratch" which fixed it. Sorry to have bothered you!