I compiled NaS but the return message in linux.
do you have an idea on what kind of errors?
thankyou
Code:
root@midox-VGN-NS11S-S:/home/midox/Bureau/NaS-master# $(pwd)/NaS_v2/NaS --fq1 NaS_example_acineto/AWK_DOSF_1_1_A5KR6.IND3_clean.10prc.fastq --fq2 NaS_example_acineto/AWK_DOSF_1_2_A5KR6.IND3_clean.10prc.fastq --nano NaS_example_acineto/MinION_reads_Acinetobacter_baylyi.fa --out NaS_example --nb_proc 5 Number of parallel task : 5 [lundi 8 juin 2015, 14:14:24 (UTC+0200)] Create output directory : NaS_example [lundi 8 juin 2015, 14:14:24 (UTC+0200)] Create fasta file from fastq... /home/midox/Bureau/NaS-master/NaS_v2/FastaToTbl: 60: /home/midox/Bureau/NaS-master/NaS_v2/FastaToTbl: gawk: not found /home/midox/Bureau/NaS-master/NaS_v2/TblToFasta: 60: /home/midox/Bureau/NaS-master/NaS_v2/TblToFasta: gawk: not found paste: NaS_example_acineto/AWK_DOSF_1_2_A5KR6.IND3_clean.10prc.fastq: No such file or directory [lundi 8 juin 2015, 14:14:24 (UTC+0200)] Alignement step in fast mode... [lundi 8 juin 2015, 14:14:24 (UTC+0200)] Select reads... [lundi 8 juin 2015, 14:14:24 (UTC+0200)] Retrieve similar reads... [lundi 8 juin 2015, 14:14:25 (UTC+0200)] Generate NaS reads... cat: NaS_example/assemblies/*/NaS_hqctg_reads_final.fa: No such file or directory /home/midox/Bureau/NaS-master/NaS_v2/TblToFasta: 60: /home/midox/Bureau/NaS-master/NaS_v2/TblToFasta: gawk: not found /home/midox/Bureau/NaS-master/NaS_v2/FastaToTbl: 60: /home/midox/Bureau/NaS-master/NaS_v2/FastaToTbl: gawk: not found [lundi 8 juin 2015, 14:14:25 (UTC+0200)] Generate statistics... fastalength: error while loading shared libraries: libglib-1.2.so.0: cannot open shared object file: No such file or directory fastacomposition: error while loading shared libraries: libglib-1.2.so.0: cannot open shared object file: No such file or directory /home/midox/Bureau/NaS-master/NaS_v2/assemblyMetrics: 108: /home/midox/Bureau/NaS-master/NaS_v2/assemblyMetrics: gawk: not found fastalength: error while loading shared libraries: libglib-1.2.so.0: cannot open shared object file: No such file or directory fastacomposition: error while loading shared libraries: libglib-1.2.so.0: cannot open shared object file: No such file or directory /home/midox/Bureau/NaS-master/NaS_v2/assemblyMetrics: 108: /home/midox/Bureau/NaS-master/NaS_v2/assemblyMetrics: gawk: not found NbReads= -1 CumulativeSize= number= N50size= minSize= -1 maxSize= -nan avgSize= => NaS_example/NANO_reads.stats NbReads= -1 CumulativeSize= number= N50size= minSize= -1 maxSize= -nan avgSize= => NaS_example/NaS_hqctg_reads.stats
thankyou
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