invalid forward file for PE library

[MChiaraC]

Hi, I am trying to assemble a bacterial genome from miseq paired end reads in masurca 3.3.0. i compiled the configuration file as follows:

DATA

Illumina paired end reads supplied as

if single-end, do not specify

MUST HAVE Illumina paired end reads to use MaSuRCA

PE=pe 267 57 ~/projects/miseq/pant_bact/DLK2/frag_1.fastq ~/projects/miseq/pant_bact/DLK2/frag_2.fastq

Illumina mate pair reads supplied as

JUMP= sh 3600 200

pacbio OR nanopore reads must be in a single fasta or fastq file with absolute path, can be gzipped

if you have both types of reads supply them both as NANOPORE type

PACBIO=/FULL_PATH/pacbio.fa

NANOPORE=/FULL_PATH/nanopore.fa

Other reads (Sanger, 454, etc) one frg file, concatenate your frg files into one if you have many

OTHER=/FULL_PATH/file.frg

END

and I get

perl: warning: Setting locale failed. perl: warning: Please check that your locale settings: LANGUAGE = "en_US:en", LC_ALL = (unset), LC_CTYPE = "UTF-8", LANG = "en_US.UTF-8" are supported and installed on your system. perl: warning: Falling back to a fallback locale ("en_US.UTF-8"). Error line 17 of configuration file 'sr_config_DLK2.txt': invalid forward file for PE library 'pe': '~/projects/miseq/pant_bact/DLK2/frag_1.fastq' Bad file descriptor

I checked the path and the file and they seem ok... I am stuck here.. Any help? Thanks anyway Chiara

[HafidaB]

I am getting the same error , Have you found a solution ?

[asan-emirsaleh]

I have the same. I suggest you to change tilda "~" onto absolute path. I use symlinks may be it caused the problem.