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lh3 / hickit

TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
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/usr/bin/env: k8: No such file or directory? #11

Closed tarak77 closed 6 years ago

tarak77 commented 6 years ago

Hi, I am new to javascript shells. I downloaded the precompiled binaries for k8 on Linux and then based on https://github.com/lh3/hickit/issues/5#issuecomment-419579074 ,trying to run with the following command:

[tshisode@darwin hickit-master]$ /home/tshisode/k8-0.2.5/k8-Linux ./hickit.js sam2seg -v cast_C57BL6J.phased_SNP.tsv ./4CSE-101_hickit/aln.sam.gz | ./hickit.js chronly - | gzip > ./4CSE-101_hickit/contacts.seg.gz
/usr/bin/env: k8: No such file or directory

Am i missing something?

tanlongzhi commented 6 years ago

You missed adding k8 during your second call of hickit.js (namely ./hickit.js chronly -).

Alternatively, you can rename your k8-Linux to k8 and put it under your path (for example, to ~/bin/). Doing so will allow you to use ./hickit.js directly.

tarak77 commented 6 years ago

Oh, got it. Thanks!