Hi
im trying to make hybrid assembly for Ecoli using MiSeq and Nanopore data in Masurca. currently i m getting two errors marked in Bold bellow. my MinION fastq files should be OK, no idea why im getting such errors.
any helps would be appreciate.
/Downloads/MaSuRCA-4.0.3/bin/masurca -t 32 -i MiSeq_R1.fastq MiSeq_R2.fastq -r MinION.fastq
Verifying PATHS...
jellyfish OK
runCA OK
createSuperReadsForDirectory.perl OK
creating script file for the actions...done.
execute assemble.sh to run assembly
[fr. 04. juni 15:42:56 +0200 2021] Processing pe library reads
[fr. 04. juni 15:42:56 +0200 2021] Average PE read length 250
[fr. 04. juni 15:42:56 +0200 2021] Using kmer size of 127 for the graph
[fr. 04. juni 15:42:56 +0200 2021] MIN_Q_CHAR: 33
[fr. 04. juni 15:42:56 +0200 2021] Estimated genome size: 5058150
[fr. 04. juni 15:42:56 +0200 2021] Computing super reads from PE
[fr. 04. juni 15:42:56 +0200 2021] Using CABOG from /Downloads/MaSuRCA-4.0.3/bin/../CA8/Linux-amd64/bin
[fr. 04. juni 15:42:56 +0200 2021] Running mega-reads correction/assembly
[fr. 04. juni 15:42:56 +0200 2021] Using mer size 17 for mapping, B=15, d=0.02
[fr. 04. juni 15:42:56 +0200 2021] Estimated Genome Size 5058150
[fr. 04. juni 15:42:56 +0200 2021] Estimated Ploidy 1
[fr. 04. juni 15:42:56 +0200 2021] Using 32 threads
[fr. 04. juni 15:42:56 +0200 2021] Output prefix mr.41.17.15.0.02
[fr. 04. juni 15:42:56 +0200 2021] Pre-correction and initial filtering of the long reads
[fr. 04. juni 15:42:57 +0200 2021] Failed to pre-correct MinION.fastq file, please check your data!
[fr. 04. juni 15:42:57 +0200 2021] mega-reads exited before assembly
im trying to make hybrid assembly for Ecoli using MiSeq and Nanopore data in Masurca. currently i m getting two errors marked in Bold bellow. my MinION fastq files should be OK, no idea why im getting such errors.
any helps would be appreciate.
/Downloads/MaSuRCA-4.0.3/bin/masurca -t 32 -i MiSeq_R1.fastq MiSeq_R2.fastq -r MinION.fastq
Verifying PATHS...
jellyfish OK
runCA OK
createSuperReadsForDirectory.perl OK
creating script file for the actions...done.
execute assemble.sh to run assembly
[fr. 04. juni 15:42:56 +0200 2021] Processing pe library reads
[fr. 04. juni 15:42:56 +0200 2021] Average PE read length 250
[fr. 04. juni 15:42:56 +0200 2021] Using kmer size of 127 for the graph
[fr. 04. juni 15:42:56 +0200 2021] MIN_Q_CHAR: 33
[fr. 04. juni 15:42:56 +0200 2021] Estimated genome size: 5058150
[fr. 04. juni 15:42:56 +0200 2021] Computing super reads from PE
[fr. 04. juni 15:42:56 +0200 2021] Using CABOG from /Downloads/MaSuRCA-4.0.3/bin/../CA8/Linux-amd64/bin
[fr. 04. juni 15:42:56 +0200 2021] Running mega-reads correction/assembly
[fr. 04. juni 15:42:56 +0200 2021] Using mer size 17 for mapping, B=15, d=0.02
[fr. 04. juni 15:42:56 +0200 2021] Estimated Genome Size 5058150
[fr. 04. juni 15:42:56 +0200 2021] Estimated Ploidy 1
[fr. 04. juni 15:42:56 +0200 2021] Using 32 threads
[fr. 04. juni 15:42:56 +0200 2021] Output prefix mr.41.17.15.0.02
[fr. 04. juni 15:42:56 +0200 2021] Pre-correction and initial filtering of the long reads
[fr. 04. juni 15:42:57 +0200 2021] Failed to pre-correct MinION.fastq file, please check your data!
[fr. 04. juni 15:42:57 +0200 2021] mega-reads exited before assembly