mathog

Also, after the build this happens: ``` make test Running tests... Test project /usr/common/src/bowtie2-2.4.1/build Start 1: simple-align 1/1 Test #1: simple-align .....................***Failed 0.04 sec 0% tests passed, 1 tests failed...

The bug_fixes branch CMakeLists.txt was loaded on top of an otherwise vanilla 2.4.1, then ``` mkdir build cd build cmake -DCMAKE_INSTALL_PREFIX:PATH=$TOPDIR .. make 2>&1 | tee ../build_2020_04_27.log make install ```...

On Wed, 22 Apr 2020, ch4rr0 wrote: > > My most recent commits to the bug_fixes branch should address these. OK, I see them. Regarding the changes like this one:...

After entering the changes there were still a bunch of warnings, but not the ones specifically fixed in those commits. I only edited in the changes on top of 1.2.3...

Following up on this, it was necessary to edit 5 Makefiles to build 3.3.3 on CentOS 7. It really should be set up so that only the top Makefile is...

Sorry, I clicked "comment" too soon. The top Makefile assumes that the installation should put links in /usr/local/bin. That is not the case for a "module" based install.

On Wed, 20 May 2020, bam2wigKillMe wrote: > > Struggling with bam2wig for five hours, please do me a favor. > when I type 'make' in bam2wig, it ended like:...

On 2020-05-22 20:33, bam2wigKillMe wrote: > Thank you for your answer very much! > But I'm not a root user, so I can't rm files in /usr/ . Anybody who...

This worked for me: ``` diff auxprogs/utrrnaseq/Debug/src/subdir.mk auxprogs/utrrnaseq/Debug/src/subdir.mk.dist 41c41 < g++ -I/usr/include/boost169 -O0 -g3 -pedantic -Wall -c -fmessage-length=0 -MMD -MP -MF"$(@:%.o=%.d)" -MT"$(@)" -o "$@" "$

It does the same thing no matter where I run it. Interestingly it runs in valgrind, but also throws some errors which are presumably causing the segfault when it runs...