Build log

recon-1.06:20110309-190647.log (text/plain), 6.90 KB, created by Diego Elio Pettenò (RETIRED) on 2011-03-10 10:15:57 UTC

 * Package:    sci-biology/recon-1.06
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail]
 * USE:        elibc_glibc kernel_linux test userland_GNU x86
 * FEATURES:   sandbox test userpriv usersandbox
>>> Unpacking source...
>>> Unpacking RECON1.06.tar.gz to /var/tmp/portage/sci-biology/recon-1.06/work
>>> Source unpacked in /var/tmp/portage/sci-biology/recon-1.06/work
>>> Preparing source in /var/tmp/portage/sci-biology/recon-1.06/work/RECON1.06 ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/recon-1.06/work/RECON1.06 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/recon-1.06/work/RECON1.06 ...
make -j14 -C src 
make: Entering directory `/var/tmp/portage/sci-biology/recon-1.06/work/RECON1.06/src'
gcc -O  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu  imagespread.c   -o imagespread
gcc -O  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu  eledef.c   -o eledef
gcc -O  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu  eleredef.c   -o eleredef
gcc -O  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu  edgeredef.c   -o edgeredef
gcc -O  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu  famdef.c   -o famdef
In file included from eledef.c:1:0:
msps.h: In function ‘scan_msp’:
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 3 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 5 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 6 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 8 has type ‘int32_t *’In file included from ele.h:1:0,
                 from famdef.c:1:
msps.h: In function ‘scan_msp’:

msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 9 has type ‘int32_t *’
In file included from ele.h:1:0,
                 from edgeredef.c:1:
msps.h: In function ‘scan_msp’:msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 3 has type ‘int32_t *’

msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 3 has type ‘int32_t *’msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 5 has type ‘int32_t *’

msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 6 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 5 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 8 has type ‘int32_t *’msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 6 has type ‘int32_t *’

msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 8 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 9 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 9 has type ‘int32_t *’
In file included from ele.h:1:0,
                 from eleredef.c:5:
msps.h: In function ‘scan_msp’:
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 3 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 5 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 6 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 8 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 9 has type ‘int32_t *’
In file included from imagespread.c:2:0:
msps.h: In function ‘scan_msp’:
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 3 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 5 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 6 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 8 has type ‘int32_t *’
msps.h:116:5: warning: format ‘%ld’ expects type ‘long int *’, but argument 9 has type ‘int32_t *’
imagespread.c: In function ‘GetSeqNames’:
seqlist.h:19:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result
eledef.c: In function ‘main’:
eledef.c:246:7: warning: ignoring return value of ‘freopen’, declared with attribute warn_unused_result
eledef.c:253:5: warning: ignoring return value of ‘freopen’, declared with attribute warn_unused_result
eledef.c: In function ‘GetSeqNames’:
seqlist.h:19:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result
edgeredef.c: In function ‘general_edge_redef’:
edgeredef.c:196:11: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result
famdef.c: In function ‘GetSeqNames’:
seqlist.h:19:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result
edgeredef.c: In function ‘GetSeqNames’:
seqlist.h:19:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result
eleredef.c: In function ‘GetSeqNames’:
seqlist.h:19:8: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result
In file included from /usr/include/stdio.h:930:0,
                 from bolts.h:3,
                 from msps.h:3,
                 from eledef.c:1:
In function ‘fgets’,
    inlined from ‘img_charge’ at eledef.c:393:15:
/usr/include/bits/stdio2.h:253:2: warning: call to ‘__fgets_chk_warn’ declared with attribute warning: fgets called with bigger size than length of destination buffer
make: Leaving directory `/var/tmp/portage/sci-biology/recon-1.06/work/RECON1.06/src'
>>> Source compiled.
>>> Test phase [none]: sci-biology/recon-1.06

>>> Install recon-1.06 into /var/tmp/portage/sci-biology/recon-1.06/image/ category sci-biology
>>> Completed installing recon-1.06 into /var/tmp/portage/sci-biology/recon-1.06/image/

strip: i686-pc-linux-gnu-strip --strip-unneeded -R .comment
   usr/libexec/recon/famdef
   usr/libexec/recon/edgeredef
   usr/libexec/recon/eledef
   usr/libexec/recon/eleredef
   usr/libexec/recon/imagespread

 * QA Notice: Package has poor programming practices which may compile
 *            fine but exhibit random runtime failures.
 * /usr/include/bits/stdio2.h:253:2: warning: call to ‘__fgets_chk_warn’ declared with attribute warning: fgets called with bigger size than length of destination buffer

 * Please do not file a Gentoo bug and instead report the above QA
 * issues directly to the upstream developers of this software.
 * Homepage: http://selab.janelia.org/recon.html
 * 	http://www.repeatmasker.org/RepeatModeler.html