make.contigs error on certain samples

Commands in mothur
1

trying to make contigs for 16 samples, when it hits this sample I get this warning (repeated until I kill the process). I’ve tried redownloading the sequences from basespace, but get the same error

>>>>>   Processing file pair fastq/deep.water.wm2.Blitz.H2O.51_S84_L001_R1_001.f
astq.gz - fastq/deep.water.wm2.Blitz.H2O.51_S84_L001_R2_001.fastq.gz (files 5 of
 16)    <<<<<
Making contigs...
[WARNING]: Lengths do not match for sequence M01676:22:000000000-ANR1V:1:1103:16775:21122. Read 251 characters for fasta and 138 characters for quality scores, ignoring read.[WARNING]: Lengths do not match for sequence M01676:22:000000000-ANR1V:1:1103:16775:21122. Read 251 characters for fasta and 138 characters for quality scores, ignoring read.[WARNING]: Blank fasta name, ignoring read.
[WARNING]: missing sequence for , ignoring.[WARNING]: expected a name with + as a leading character, ignoring.[WARNING]: missing quality for , ignoring.[WARNING]: Blank fasta name, ignoring read.
2

unzipping the files fixes the issue. for reference, I was using 1.38.1 and the students were using 1.39.5. We all got the same error. Let me know if you want me to share the basespace project so you can try to replicate this error.