Valgrind error with "sga assemble": Conditional jump or move depends on uninitialised value(s)

[ghost]

While running the whole sga pipeline on a small fastq file, I observed an error with valgrind during the "sga assemble" step.

valgrind /home/localspace/pericard/programmes/sga/src/SGA/sga assemble -m 30 -g 0 -r 10 -d 0.03 -g 0.03 -o assemble.m30 merged.k21.rmdup.asqg.gz ==12298== Memcheck, a memory error detector ==12298== Copyright (C) 2002-2011, and GNU GPL'd, by Julian Seward et al. ==12298== Using Valgrind-3.7.0 and LibVEX; rerun with -h for copyright info ==12298== Command: /home/localspace/pericard/programmes/sga/src/SGA/sga assemble -m 30 -g 0 -r 10 -d 0.03 -g 0.03 -o assemble.m30 merged.k21.rmdup.asqg.gz ==12298== ==12298== Conditional jump or move depends on uninitialised value(s) ==12298== at 0x524786: SGSuperRepeatVisitor::visit(Bigraph, Vertex) (in /home/localspace/pericard/programmes/sga/src/SGA/sga) ==12298== by 0x51EE37: bool Bigraph::visit(SGSuperRepeatVisitor&) (in /home/localspace/pericard/programmes/sga/src/SGA/sga) ==12298== by 0x51E526: SGUtil::loadASQG(std::string const&, unsigned int, bool, unsigned long) (in /home/localspace/pericard/programmes/sga/src/SGA/sga) ==12298== by 0x417042: assemble() (in /home/localspace/pericard/programmes/sga/src/SGA/sga) ==12298== by 0x4185DF: assembleMain(int, char**) (in /home/localspace/pericard/programmes/sga/src/SGA/sga) ==12298== by 0x40B2BA: main (in /home/localspace/pericard/programmes/sga/src/SGA/sga) ==12298==

I attached the bash file i'm running, a small fastq file test, and the log file i'm obtaining. SRA_LTP.test_dataset.rrna.sample.fastq.txt test_assembly.sga.log.txt test_assembly.sh.txt

[jts]

Thanks for the report, this is fixed in 7eae8ab37