Build log

trnascan-se-1.23-r1:20090728-230314.log (text/plain), 12.71 KB, created by Diego Elio Pettenò (RETIRED) on 2009-07-29 11:48:10 UTC

>>> Unpacking source...
>>> Unpacking trnascan-se-1.23.tar.bz2 to /var/tmp/portage/sci-biology/trnascan-se-1.23-r1/work
>>> Source unpacked in /var/tmp/portage/sci-biology/trnascan-se-1.23-r1/work
>>> Compiling source in /var/tmp/portage/sci-biology/trnascan-se-1.23-r1/work/trnascan-se-1.23 ...
make -j14 
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c trnascan.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c align.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c dbviterbi.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c debug.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c emit.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c fast-dbviterbi.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c fastmodelmaker.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c konings.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c lengthdist.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c maxmodelmaker.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c misc.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c model.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c modelmaking.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c prior.c		
debug.c: In function 'PrintTrace':
debug.c:139: warning: format '%#12x' expects type 'unsigned int', but argument 3 has type 'struct trace_s *'
debug.c:139: warning: format '%#10x' expects type 'unsigned int', but argument 8 has type 'struct trace_s *'
debug.c:139: warning: format '%#10x' expects type 'unsigned int', but argument 9 has type 'struct trace_s *'
debug.c:139: warning: format '%#10x' expects type 'unsigned int', but argument 10 has type 'struct trace_s *'
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c probify.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c save.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c smallviterbi.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c scorestack.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c structs.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c trace.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c viterbi.c		
scorestack.c: In function 'free_hitstack':
scorestack.c:247: warning: comparison between pointer and integer
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c alignio.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c sqerror.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c sqio.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c iupac.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c msf.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c revcomp.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c selex.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c sre_ctype.c		
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c sre_math.c		
save.c: In function 'WriteBinaryCM':
save.c:105: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:108: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:114: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:117: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:118: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:121: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:124: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:125: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:128: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:129: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c:130: warning: ignoring return value of 'fwrite', declared with attribute warn_unused_result
save.c: In function 'read_cm20':
save.c:216: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:226: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:227: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:228: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:234: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:235: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:240: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:241: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:244: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:245: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:251: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:252: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:256: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:257: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:260: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
save.c:261: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
trnascan.c: In function 'main':
trnascan.c:822: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:824: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c: In function 'lectval':
trnascan.c:1165: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result
trnascan.c: In function 'fgetseq':
trnascan.c:1228: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1248: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1250: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1309: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1316: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c: In function 'getseqsize':
trnascan.c:1352: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1366: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1368: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1396: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c:1402: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
trnascan.c: In function 'printresult':
trnascan.c:1898: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1898: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1901: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1901: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1901: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1901: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1903: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1903: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1903: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1903: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1905: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1905: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1905: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1905: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1910: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1910: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1910: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1910: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1915: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1915: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1915: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1915: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1918: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1918: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1918: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1918: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1934: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1934: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1964: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1964: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1968: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1968: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1968: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1968: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1970: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1970: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1970: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1970: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1972: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1972: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1972: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1972: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1979: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1979: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1979: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1979: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1985: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1985: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1985: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1985: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:1989: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:1989: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
trnascan.c:1989: warning: format '%d' expects type 'int', but argument 5 has type 'long int'
trnascan.c:1989: warning: format '%d' expects type 'int', but argument 6 has type 'long int'
trnascan.c:2006: warning: format '%d' expects type 'int', but argument 3 has type 'long int'
trnascan.c:2006: warning: format '%d' expects type 'int', but argument 4 has type 'long int'
i686-pc-linux-gnu-gcc	   -O2 -pipe      -c sre_string.c		
sqio.c:238: error: conflicting types for 'getline'
/usr/include/stdio.h:651: note: previous declaration of 'getline' was here
make: *** [sqio.o] Error 1
make: *** Waiting for unfinished jobs....
 [31;01m*[0m 
 [31;01m*[0m ERROR: sci-biology/trnascan-se-1.23-r1 failed.
 [31;01m*[0m Call stack:
 [31;01m*[0m               ebuild.sh, line   49:  Called src_compile
 [31;01m*[0m             environment, line  987:  Called die
 [31;01m*[0m The specific snippet of code:
 [31;01m*[0m       emake || die;
 [31;01m*[0m  The die message:
 [31;01m*[0m   (no error message)
 [31;01m*[0m 
 [31;01m*[0m If you need support, post the topmost build error, and the call stack if relevant.
 [31;01m*[0m A complete build log is located at '/var/log/portage/sci-biology/trnascan-se-1.23-r1:20090728-230314.log'.
 [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/sci-biology/trnascan-se-1.23-r1/temp/environment'.
 [31;01m*[0m