marbl/canu

Error: Could not establish configuration source

Ecoulembier opened this issue · 1 comments

Hi,

I downloaded Canu using Conda, to try to correct, trim & assemble my data.
This is my code:

canu -p '240307.WildType' -d '/home/emmaco/Documents/Nucleomics_genomes/' genomeSize=100m corErrorRate=0.0 -pacbio-raw "/home/emmaco/Documents/Nucleomics_genomes/240307.Wildtype.fastq.gz"
'''
 I get this error.
'''
-- Canu v0.0 (+0 commits) r0 unknown-hash-tag-no-repository-available.
-- Detected Java(TM) Runtime Environment '11.0.15' (from '/usr/lib64/jvm/java/bin/java').
-- Detected gnuplot version '5.0 patchlevel 3' (from 'gnuplot') and image format 'png'.
-- Detected 24 CPUs and 63 gigabytes of memory.
-- Detected Slurm with 'sinfo' binary in /usr/local/bin/sinfo.
scontrol: error: resolve_ctls_from_dns_srv: res_nsearch error: No error
scontrol: error: fetch_config: DNS SRV lookup failed
scontrol: error: _establish_config_source: failed to fetch config
scontrol: fatal: Could not establish a configuration source
sinfo: error: resolve_ctls_from_dns_srv: res_nsearch error: No error
sinfo: error: fetch_config: DNS SRV lookup failed
sinfo: error: _establish_config_source: failed to fetch config
sinfo: fatal: Could not establish a configuration source
--
Undefined subroutine &canu::Configure::caExit called at /home/emmaco/Documents/anaconda3/libexec/lib/canu/Configure.pm line 192.

Did I download the wrong version? When I try
'canu -version' I get this:
'Canu v0.0 (+0 commits) r0 unknown-hash-tag-no-repository-available.'

Your machine claims to have slurm installed (e.g. it has a sinfo binary) but that binary then fails to run. Not sure why that is the case. It should run if you disable grid support by adding useGrid=false