[Debian-med-packaging] Bug#847171: soapdenovo2: FTBFS: standardPregraph/iterate.o: file not recognized: File truncated

[Chris Lamb]

Source: soapdenovo2
Version: 240+dfsg1-1
Severity: serious
Justification: fails to build from source
User: reproducible-builds at lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-Cc: reproducible-bugs at lists.alioth.debian.org

Dear Maintainer,

soapdenovo2 fails to build from source in unstable/amd64:

  […]

  iterate.c: In function 'swapedge':
  iterate.c:1653:5: warning: implicit declaration of function 'copyEdge' [-Wimplicit-function-declaration]
       copyEdge ( i, num_ed + 1 + 1 );
       ^~~~~~~~
  iterate.c: In function 'fresh':
  iterate.c:2156:37: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long long int' [-Wformat=]
     fprintf ( stderr, "Refresh edge: %d kmer(s) found.\n", newfoundcount );
                                       ^
  iterate.c:2157:37: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long long int' [-Wformat=]
     fprintf ( stderr, "Refresh edge: %d kmer(s) not found.\n", newnotfoundcount );
                                       ^
  iterate.c: In function 'Iterate':
  iterate.c:2566:4: warning: implicit declaration of function 'removeWeakEdges2' [-Wimplicit-function-declaration]
      removeWeakEdges2 ( cutlen, 1, mink );
      ^~~~~~~~~~~~~~~~
  iterate.c:2567:4: warning: implicit declaration of function 'removeLowCovEdges2' [-Wimplicit-function-declaration]
      removeLowCovEdges2 ( cutlen, deLowEdge, mink, 0 );
      ^~~~~~~~~~~~~~~~~~
  iterate.c:2576:4: warning: implicit declaration of function 'cutTipsInGraph2' [-Wimplicit-function-declaration]
      cutTipsInGraph2 ( cutlen, 0, 0 );
      ^~~~~~~~~~~~~~~
  make[2]: Leaving directory '«BUILDDIR»/standardPregraph'
  standardPregraph/iterate.o: file not recognized: File truncated
  collect2: error: ld returned 1 exit status
  make[2]: Leaving directory '«BUILDDIR»/standardPregraph'
  Makefile:70: recipe for target 'SOAPdenovo-63mer' failed
  make[1]: *** [SOAPdenovo-63mer] Error 1
  make[1]: *** Waiting for unfinished jobs....
  make[1]: Leaving directory '«BUILDDIR»'
  dh_auto_build: make -j9 returned exit code 2
  debian/rules:15: recipe for target 'build' failed
  make: *** [build] Error 2
  dpkg-buildpackage: error: debian/rules build gave error exit status 2

  […]

The full build log is attached.


Regards,

-- 
      ,''`.
     : :'  :     Chris Lamb
     `. `'`      lamby at debian.org / chris-lamb.co.uk
       `-
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