diff --git a/ChangeLog b/ChangeLog index 91857714a..e57c687bf 100644 --- a/ChangeLog +++ b/ChangeLog @@ -1,3 +1,12 @@ +2018-12-04 Sauparna Palchowdhury + + * Release version 2.1.5 + * Compiler fixes and increse stack size limits to avoid stack overflows. + + abyss-pe: + * Add 'ulimit' statements to the Makefile to increse a thread's + stack size to 64MB. + 2018-11-09 Ben Vandervalk * Release version 2.1.4 diff --git a/Misc/samtobreak.hs b/Misc/samtobreak.hs index e5a14ca03..f2d56dac8 100644 --- a/Misc/samtobreak.hs +++ b/Misc/samtobreak.hs @@ -279,7 +279,7 @@ parseArgs = do where help = putStr (usageInfo usage options) >> exitSuccess tryHelp = "Try 'abyss-samtobreak --help' for more information." - version = "abyss-samtobreak (ABySS) 2.1.4\n" + version = "abyss-samtobreak (ABySS) 2.1.5\n" usage = "Usage: samtobreak [OPTION]... [FILE]...\n\ \Calculate contig and scaffold contiguity and correctness metrics.\n" diff --git a/bin/abyss-pe b/bin/abyss-pe index 2bbbfdc98..4205d6599 100755 --- a/bin/abyss-pe +++ b/bin/abyss-pe @@ -398,7 +398,7 @@ help: @echo 'Report bugs to https://github.com/bcgsc/abyss/issues or abyss-users@bcgsc.ca.' version: - @echo "abyss-pe (ABySS) 2.1.4" + @echo "abyss-pe (ABySS) 2.1.5" @echo "Written by Shaun Jackman and Anthony Raymond." @echo @echo "Copyright 2012 Canada's Michael Smith Genome Science Centre" diff --git a/configure.ac b/configure.ac index e40527f6a..83b106331 100644 --- a/configure.ac +++ b/configure.ac @@ -1,5 +1,5 @@ AC_PREREQ(2.62) -AC_INIT(ABySS, 2.1.4, abyss-users@bcgsc.ca, abyss, +AC_INIT(ABySS, 2.1.5, abyss-users@bcgsc.ca, abyss, http://www.bcgsc.ca/platform/bioinfo/software/abyss) m4_include(m4/m4_ax_pthread.m4) AM_INIT_AUTOMAKE(1.9.6 foreign subdir-objects) @@ -263,7 +263,7 @@ elif test x"$enable_werror" = x"yes"; then AC_SUBST(AM_CXXFLAGS, '-Wall -Wextra -Werror') else # default - AC_SUBST(AM_CXXFLAGS, '-Wall -Wextra -Werror') + AC_SUBST(AM_CXXFLAGS, '-Wall -Wextra') fi # Build abyss-paired-dbg and abyss-paired-dbg-mpi diff --git a/doc/ABYSS.1 b/doc/ABYSS.1 index 65a5ed46c..3f03e3d0a 100644 --- a/doc/ABYSS.1 +++ b/doc/ABYSS.1 @@ -1,4 +1,4 @@ -.TH ABYSS "1" "2015-May" "ABYSS (ABySS) 2.1.4" "User Commands" +.TH ABYSS "1" "2015-May" "ABYSS (ABySS) 2.1.5" "User Commands" .SH NAME ABYSS \- assemble short reads into contigs .SH SYNOPSIS diff --git a/doc/abyss-pe.1 b/doc/abyss-pe.1 index 07fe73159..36090667d 100644 --- a/doc/abyss-pe.1 +++ b/doc/abyss-pe.1 @@ -1,4 +1,4 @@ -.TH abyss-pe "1" "2015-May" "abyss-pe (ABySS) 2.1.4" "User Commands" +.TH abyss-pe "1" "2015-May" "abyss-pe (ABySS) 2.1.5" "User Commands" .SH NAME abyss-pe - assemble reads into contigs .SH SYNOPSIS diff --git a/doc/abyss-tofastq.1 b/doc/abyss-tofastq.1 index 68c5f8a32..e7380ddab 100644 --- a/doc/abyss-tofastq.1 +++ b/doc/abyss-tofastq.1 @@ -1,4 +1,4 @@ -.TH abyss-tofastq "1" "2015-May" "ABySS 2.1.4" "User Commands" +.TH abyss-tofastq "1" "2015-May" "ABySS 2.1.5" "User Commands" .SH NAME abyss-tofastq \- convert various file formats to FASTQ format .br