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dnanexus-rnd / GLnexus

Scalable gVCF merging and joint variant calling for population sequencing projects
Apache License 2.0
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adding glnexus to bioconda #271

Open ramprasadn opened 3 years ago

ramprasadn commented 3 years ago

Hi all!

I'd like to be able to install glnexus through bioconda, and I was wondering if any of the developers could let me know if its okay for me to add glnexus to bioconda?

Thanks!

ld32 commented 2 years ago

Looks like it is already there: $ conda search glnexus Loading channels: done Name Version Build Channel glnexus 1.4.1 h40d77a6_0 bioconda

tuannguyen8390 commented 2 years ago

hi @ld32

Hi receive this error after installing the conda version 

glnexus_cli: /lib64/libc.so.6: version `GLIBC_2.18' not found (required by glnexus_cli)

Not sure how to fix it

xiekunwhy commented 2 years ago

I got same errors, glnexus_cli glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.15' not found (required by glnexus_cli) glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.17' not found (required by glnexus_cli) glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.14' not found (required by glnexus_cli) glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.16' not found (required by glnexus_cli) glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.18' not found (required by glnexus_cli)

and the precompiled binary gives the same errors chmod 755 glnexus_cli lnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.15' not found (required by ./glnexus_cli) ./glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.17' not found (required by ./glnexus_cli) ./glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.14' not found (required by ./glnexus_cli) ./glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.16' not found (required by ./glnexus_cli) ./glnexus_cli: /Bio/lib64/libc.so.6: version `GLIBC_2.18' not found (required by ./glnexus_cli)

tuannguyen8390 commented 2 years ago

@xiekunwhy I propose trying to install Docker (or asking your local HPC admin to install Shifter) and try the docker image supplied by the developer. I give up midway trying to install as there are so many things that need to be configured correctly. At least that is the path of least resistance.

Hope this help,

Tuan

xiekunwhy commented 1 year ago

@tuannguyen8390 , thank you very much, admins refused to install docker (or docker like system) for cluster savety concerned. I hope the author can solve this problem because many old machines and systems are still running.

Thank you.