ERROR: Discrepancy between fastq files at record with first index

[NACasillas]

I'm getting this error: ERROR: Discrepancy between fastq files at record with first index @LH00269:168:22F35GLT4:6:1101:43250:1014:CNTAGATA+CNGGCTCT/1

I have dual index illumina paired end files that I want to demultiplex after they were unmatched in a bcl2fastq run, but I'm getting this error. The names look the same to me. Am I missing something?

I'm running this src/deML -o t1/demux -i idx.txt -f t_r1.fq.gz -r t_r2.fq.gz -if1 i1_r1.fq.gz -if2 i2_r1.fq.gz --mm 2

This is the first 20 lines of each file:

zcat i1_r1.fq.gz | head -n20

@LH00269:168:22F35GLT4:6:1101:40579:1014:ANCAGCAA+CNTTGGTT
ANCAGCAA
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40611:1014:CNTCGCAG+ANCTGGCG
CNTCGCAG
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40692:1014:GNGCACGT+ANCGATAC
GNGCACGT
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40741:1014:CNTAGATA+CNGGCTCT
CNTAGATA
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40773:1014:ANCAGCAA+CNTTGGTT
ANCAGCAA
+
FFFFFFFF

zcat i2_r1.fq.gz | head -n20

@LH00269:168:22F35GLT4:6:1101:40579:1014:ANCAGCAA+CNTTGGTT
CNTTGGTT
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40611:1014:CNTCGCAG+ANCTGGCG
ANCTGGCG
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40692:1014:GNGCACGT+ANCGATAC
ANCGATAC
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40741:1014:CNTAGATA+CNGGCTCT
CNGGCTCT
+
FFFFFFFF
@LH00269:168:22F35GLT4:6:1101:40773:1014:ANCAGCAA+CNTTGGTT
CNTTGGTT
+
FFFFFFFF

zcat t_r1.fq.gz | head -n20

@LH00269:168:22F35GLT4:6:1101:40579:1014:ANCAGCAA+CNTTGGTT/1
GNTTCTATTGCAGGCTGCCTACAAATTGTAAGCTACATACTGCATGCACATAAACGATATGAGAAACATGTTTAATTTAGAATAGATGACAGCTCTAGATCATAAGTTATTCGATGCCAGATAATGCTCAATAGAAAGAACTATCTGACAT
+
I#IIIIIIII9IIII-IIII9IIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIII9IIIIIIIIIIIIIIIIII-9IIIIIIII9II9IIIII
@LH00269:168:22F35GLT4:6:1101:40611:1014:CNTCGCAG+ANCTGGCG/1
TNATGGAACATCTACCCTTACTGACCGAGGTTATAAAACACACTTAAGGTCTTGGCACACGGAATGCGGGCTGCGGTTACGGGCAGGACGTCGTGAAACACAAGGCGGGCTGCGATCTGGATGTCACACATGCTGCGGCACGGTAGGGCGT
+
I#IIIIIIIIII9I9IIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9III9IIIIII9IIIIIIIIIII
@LH00269:168:22F35GLT4:6:1101:40692:1014:GNGCACGT+ANCGATAC/1
ANAATAAACAGTTTACACCCAACTCCGGGGTGCTACTCGAATTTTGTCTTCTTTCCCGTGCCGGTAATCTAAAAGCAAGTATGAATATTTACGCCAAGTATGTCAGCCAAGCAATTTTTGACGTCATAAGCATGGCTAACATAACTATCAT
+
I#IIIIIII99IIIII9IIIIIIIIII9IIIIIIIII9IIIIII9IIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9I9IIIIIIIIIII9IIIIII9III9IIIIIIII-IIII9IIII9III9I-IIII-I
@LH00269:168:22F35GLT4:6:1101:40741:1014:CNTAGATA+CNGGCTCT/1
TNACCATACTGCATCACCCTATAACAGCGTATTTCAACTAGTGGAATGTGTACCCCCGGCTACACGCGCTGGCCCGCTAAAGGGATACGCGGAAAATAATCATTGATGGTGGAAAACGAGGAAGTCCACAAATCTACGAAAACCAAAGGAA
+
I#9IIIIIIIIIII9I9IIIIIIIIIIII99IIIIIIIIIIIIIIIIII9IIII-IIIIIIIIIIIIIII9IIIIIIII9II-IIIIIIII9I9IIIIIIIIIIIIIIIIIII-I9IIIIIIII9III9IIII9-I-I9I-I9IIII9III
@LH00269:168:22F35GLT4:6:1101:40773:1014:ANCAGCAA+CNTTGGTT/1
CNTGAAATATTAGACACGGAAGAAGGCATCCTGGCAATGGTAGGCGATGATCCCGGGCGCAGTACGCGTAGTATAGCACGTGCCGTTGGTGTATCAACTTGGACCGTGCGTAGGACACTGCATGAAGAGCAAATGCACCCTTCCCACATTA
+
I#9IIIII9IIII-IIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIII--IIIIIIIIIIIIIIIIIII9IIIIIIIIIIII9IIIIIII9IIIIII9IIIIIIIIIIIIII9III9IIIIIIIIIIIIIIIII9II-I9II9III

zcat t_r2.fq.gz | head -n20

@LH00269:168:22F35GLT4:6:1101:40579:1014:ANCAGCAA+CNTTGGTT/2
ANTATCCATGTCATCGCCTCATGATTCAGAAAACCAGATGTCAGAGAGTTCTTTCCATTGAGCATTATCTGGCATCGAATAACTTATGATCTAGAGTTGTCATCTATTCTAAATTAAACATGTTTCTCATATCGTTTATGTGCATGCAGTA
+
I#IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIII-IIIIIIIIIIIIII99IIIIIIIII9IIIIIIIIIIIIIIII9II-IIII99II
@LH00269:168:22F35GLT4:6:1101:40611:1014:CNTCGCAG+ANCTGGCG/2
ANTTACAGCCTTCCTATGTTTCTCTGCTGCTGACAAAAAGCAACTGGCCTTTCTGGCTGCCCGCACGCCCTACCGTGCCGCAGCATGTGTGACATCCAGATCGCAGCCCGCCTTGTGTTTCACGACGTCCTGCCCGTAACCGCAGCCCGCA
+
I#IIIIIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9I-I9IIIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIII9IIIIIIIIIIII
@LH00269:168:22F35GLT4:6:1101:40692:1014:GNGCACGT+ANCGATAC/2
GNGTAATGATATTTATGTTAGCCATGCTTATGACGTCAAAAATTGCTTGGCTGACATACTTGGCGTAAATATTCATACTTGCTTTTAGATTACCGGCACGGGAAAGAAGACAAAATTCGAGTAGCACCCCGGAGTTGGGTGTAAACTGTTT
+
9#IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9IIIII9IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9IIIIIII99IIIIIIII-IIIII
@LH00269:168:22F35GLT4:6:1101:40741:1014:CNTAGATA+CNGGCTCT/2
ANATATGCGTGCGTTGTGTGAAAAGTCTGTAATGATTGTTACGCAGGTTACTAGTTGAGCTTGCTTTGATGCACTTAGTTTCTTGATGTCCGGCTCAAAAGATGGGAGACGAGAGTCTTAAATTCTGACTTGCATTAAACTTGTTCTCTTA
+
I#-IIIIIIIIIIIIIIIIII9IIIIIIII-9IIIIIIIII-IIII-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-IIII9IIIIIIIIII9IIIIIIIIIIIIIIIIIIIIIIIIIII9IIIIIIIIIIIIIIII
@LH00269:168:22F35GLT4:6:1101:40773:1014:ANCAGCAA+CNTTGGTT/2
GNCAGAAAGTCTTGATTGCGTGCTTGATTAATTAACCAGTGGCACAAATGCACTCTAGGTTGGTAATCAGCTGGTGAGAGACACTGCACGCGATTAATGTGGGAAGGGTGCATTTGCTCTTCATGCAGTGTCCTACGCACGGTCCAAGTTG
+
9#IIII-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII9III9IIIIIIIIIIIIIIIIIIIIIIIIIIII9II9-IIIIIIIIII-IIIIII-IIII9IIIIIIIIIIIIIIII-IIII9IIIIIII

[grenaud]

Hello @NACasillas First off, my since apologies for the delay in replying! xmas holidays came and then I had an intense course in January.

First, I fixed the compilation. Can you provide the index file?