[Debichem-devel] Processed: Re: Bug#891750: fixed in comet-ms 2017014-1

[Gianfranco Costamagna]

Hello Filippo,



>thank you for caring about libmstoolkit/comet-ms. 


thanks to you for providing them :)
>I have now understood what was going on... inconsistency between build
>processes, as you pointed rightly in your last message. 
>
>Now the linker command line is 
>
>g++ -g -O2
>-fdebug-prefix-map=/home/rusconi/devel/packaging/comet-ms/development=.
>-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
>-D_FORTIFY_SOURCE=2 -O3 -Wall -Wextra -Wno-char-subscripts -D_LARGEFILE_SOURCE
>-D_FILE_OFFSET_BITS=64 -D__LINUX__ -I/usr/include/libmstoolkit -ICometSearch
>CometSearch/CometInterfaces.o CometSearch/CometMassSpecUtils.o
>CometSearch/CometSearch.o CometSearch/CometWritePepXML.o
>CometSearch/CometWriteTxt.o CometSearch/CometPostAnalysis.o
>CometSearch/CometSearchManager.o CometSearch/CometWritePercolator.o
>CometSearch/Threading.o CometSearch/CometPreprocess.o
>CometSearch/CometWriteOut.o CometSearch/CometWriteSqt.o Comet.o -L/usr/lib
>-lmstoolkitlite -lm -lpthread -o comet-ms 


Sorry but build log differs from your version
g++ -g -O3 -Wall -Wextra -Wno-char-subscripts -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D__LINUX__ -I/usr/include/libmstoolkit -lpthread -lmstoolkitlite Comet.o Threading.o CometInterfaces.o CometSearch.o CometPreprocess.o CometPostAnalysis.o CometMassSpecUtils.o CometWriteOut.o CometWriteSqt.o CometWritePepXML.o CometWritePercolator.o CometWriteTxt.o CometSearchManager.o   -o comet-ms

https://buildd.debian.org/status/fetch.php?pkg=comet-ms&arch=arm64&ver=2017014-1&stamp=1519907938&raw=0

Please use a clean environment.
You patched Makefile, but the *debian* build system is using a special made "debian/Makefile" that is copied in the build directory before the build starts.

See the failure:
https://launchpad.net/ubuntu/+source/comet-ms/2017014-1/+build/14412235

and the fix:
http://launchpadlibrarian.net/359198028/comet-ms_2017014-1_2017014-1ubuntu1.diff.gz

G.