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2 hours ago by

I'm trying to run transabyss on RNA_Seq data obtained from Illumina Novaseq, says
/home/data/brain_samples/fastqgz/10_S9_R1_001_trim.fastq:440: error: sequence with ID
`A00943:16:HHMNGDRXX:1:2101:20609:1047/1' is empty
make: * [transabyss-1.fa] Error

CMD

time transabyss --se /home/data/brain_samples/fastqgz/1_S4_R1_001_trim.fastq  --outdir /home/data/brain_samples/fastqgz/ --name 1_transabyssoutput  --threads 10 -k 32  > 1_transabyssoutput_log

Trim.fastq

grep -A3 'A00943:16:HHMNGDRXX:1:2101:20609:1047' head 10_S9_R1_001_trim.fastq

10_S9_R1_001_trim.fastq:@A00943:16:HHMNGDRXX:1:2101:20609:1047 1:N:0:CTGCTTCC+GATAGATC
10_S9_R1_001_trim.fastq-
10_S9_R1_001_trim.fastq-+
10_S9_R1_001_trim.fastq-

Raw.fastq

grep -A3 'A00943:16:HHMNGDRXX:1:2101:20609:1047' head 10_S9_R1_001.fastq

10_S9_R1_001.fastq:@A00943:16:HHMNGDRXX:1:2101:20609:1047 1:N:0:CTGCTTCC+GATAGATC
10_S9_R1_001.fastqGATCGGAAGAGCACACGTCTGAACTCCAGTCACCTGCTTCCATCTCGTATGCCGTCTTCTGCTTGAAAAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
10_S9_R1_001.fastq-+
10_S9_R1_001.fastq-FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF,:FFFFFFFFFF:FFFF:FFF:FF::,:,FFFFFFFFFFFFFFFFFFFFFFFFFFFF

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modified 43 minutes ago

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2 hours ago
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sunnykevin9740



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