Build log

maid-20011112:20081219-061304.log (text/plain), 9.36 KB, created by Diego Elio Pettenò (RETIRED) on 2008-12-19 12:53:45 UTC

>>> Unpacking source...
>>> Unpacking maid_unix_12nov01.tar.gz to /var/tmp/portage/sci-chemistry/maid-20011112/work
>>> Unpacking maid-fix-compilation.patch.bz2 to /var/tmp/portage/sci-chemistry/maid-20011112/work
 [32;01m*[0m Applying maid-fix-compilation.patch.bz2 ...
[A[72C  [34;01m[ [32;01mok[34;01m ][0m
 [32;01m*[0m Applying fix-warnings.patch ...
[A[72C  [34;01m[ [32;01mok[34;01m ][0m
 [32;01m*[0m Applying maid-gcc4.3.patch ...
[A[72C  [34;01m[ [32;01mok[34;01m ][0m
>>> Source unpacked.
>>> Compiling source in /var/tmp/portage/sci-chemistry/maid-20011112/work/glmaid_dist ...
make -j14 
i686-pc-linux-gnu-g++ -c  -O2 -pipe extend2.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe checkfit.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe refine.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe extendfit.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe mainbatch.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe initialize.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe runtordynnew.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe editbones.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe peptide.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe bone.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe tordyn.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe math.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe trace.c++
i686-pc-linux-gnu-g++ -c  -O2 -pipe rankside.c++
mainbatch.c++: In function 'void readmaidfilebatch(maiddatafile&, griddata*, bonedata*)':
mainbatch.c++:81: error: 'strcmp' was not declared in this scope
mainbatch.c++:101: error: 'strcpy' was not declared in this scope
mainbatch.c++:102: error: 'strcat' was not declared in this scope
mainbatch.c++: In function 'int main(int, char**)':
mainbatch.c++:123: error: 'strcpy' was not declared in this scope
mainbatch.c++:138: error: 'strcpy' was not declared in this scope
mainbatch.c++:146: error: 'strcpy' was not declared in this scope
mainbatch.c++:151: error: 'strcasecmp' was not declared in this scope
mainbatch.c++:157: error: 'strcpy' was not declared in this scope
mainbatch.c++:177: error: 'strcasecmp' was not declared in this scope
mainbatch.c++:209: warning: deprecated conversion from string constant to 'char*'
mainbatch.c++:232: warning: deprecated conversion from string constant to 'char*'
make: *** [mainbatch.o] Error 1
make: *** Waiting for unfinished jobs....
checkfit.c++: In function 'void checkextendedfit(int, geometry&, griddata&, int*, int*)':
checkfit.c++:619: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:630: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:639: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:657: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:700: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:718: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:745: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:769: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:782: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:793: warning: deprecated conversion from string constant to 'char*'
checkfit.c++:813: warning: deprecated conversion from string constant to 'char*'
checkfit.c++: In function 'void bonedistgeo(griddata&, geometry&, bonedata&, int*)':
checkfit.c++:1536: warning: deprecated conversion from string constant to 'char*'
extendfit.c++: In function 'void maxfitdist(geometry&, pepfit&, int, int*)':
extendfit.c++:1150: warning: deprecated conversion from string constant to 'char*'
checkfit.c++: In function 'void bonedistgeo2(griddata&, geometry&, bonedata&, int*)':
checkfit.c++:1703: warning: deprecated conversion from string constant to 'char*'
checkfit.c++: In function 'void bonedist(griddata&, geometry&, bonedata&)':
checkfit.c++:1958: warning: deprecated conversion from string constant to 'char*'
extendfit.c++: In function 'void extendandfuse(pepset&, griddata&, geometry&, int (*)[40], int*, int)':
extendfit.c++:3967: warning: deprecated conversion from string constant to 'char*'
peptide.c++: In function 'float zbrent(float (*)(float, float (*)[3], float, float*, float*, float*, float*, float*, float*, float*, float, float, float, float, float, float, float, float, float, float, float), float, float, float (*)[3], float, float*, float*, float*, float*, float*, float*, float*, float, float, float, float, float, float, float, float, float, float, float, float)':
peptide.c++:1579: warning: deprecated conversion from string constant to 'char*'
peptide.c++:1632: warning: deprecated conversion from string constant to 'char*'
peptide.c++: In function 'float zbrentn(float (*)(float, float*, int*, int, float (*)[3], float (*)[3], float, float*, float, float, float, float, float, float, float, float, float, float, float), float, float, float*, int*, int, float (*)[3], float (*)[3], float, float*, float, float, float, float, float, float, float, float, float, float, float, float)':
peptide.c++:1757: warning: deprecated conversion from string constant to 'char*'
peptide.c++:1810: warning: deprecated conversion from string constant to 'char*'
In file included from trace.c++:51:
tracerecipes.inc: In function 'float* fvector(long int, long int)':
tracerecipes.inc:51: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'int* ivector(long int, long int)':
tracerecipes.inc:61: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'unsigned char* cvector(long int, long int)':
tracerecipes.inc:71: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'long unsigned int* lvector(long int, long int)':
tracerecipes.inc:81: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'double* dvector(long int, long int)':
tracerecipes.inc:91: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'float** matrix(long int, long int, long int, long int)':
tracerecipes.inc:103: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc:109: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'double** dmatrix(long int, long int, long int, long int)':
tracerecipes.inc:127: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc:133: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'int** imatrix(long int, long int, long int, long int)':
tracerecipes.inc:151: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc:158: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'float** submatrix(float**, long int, long int, long int, long int, long int, long int)':
tracerecipes.inc:177: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'float** convert_matrix(float*, long int, long int, long int, long int)':
tracerecipes.inc:199: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'float*** f3tensor(long int, long int, long int, long int, long int, long int)':
tracerecipes.inc:218: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc:224: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc:230: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'float brent(geometry&, griddata&, int, pepfit, pepfit, float*, float*, float (*)[20][3], float (*)[20][3], int, float*, float*, float*, float, float, float, float (*)(float, geometry&, griddata&, int, pepfit, pepfit, float*, float*, float (*)[20][3], float (*)[20][3], int, float*, float*, float*), float, float*)':
tracerecipes.inc:380: warning: deprecated conversion from string constant to 'char*'
tracerecipes.inc: In function 'void powell(geometry&, griddata&, int, pepfit, pepfit, float*, float*, float (*)[20][3], float (*)[20][3], int, float*, float*, float*, float*, float**, int, float, int*, float*, float (*)(float*, geometry&, griddata&, int, pepfit, pepfit, float*, float*, float (*)[20][3], float (*)[20][3], int, float*, float*, float*))':
tracerecipes.inc:562: warning: deprecated conversion from string constant to 'char*'
trace.c++: In function 'void initialfit(griddata&, geometry&, point&, int, int*, pepfit*, int*, int***, bonedata&)':
trace.c++:6116: warning: deprecated conversion from string constant to 'char*'
trace.c++:6267: warning: deprecated conversion from string constant to 'char*'
 [31;01m*[0m 
 [31;01m*[0m ERROR: sci-chemistry/maid-20011112 failed.
 [31;01m*[0m Call stack:
 [31;01m*[0m               ebuild.sh, line   49:  Called src_compile
 [31;01m*[0m             environment, line 2148:  Called _eapi0_src_compile
 [31;01m*[0m               ebuild.sh, line  595:  Called _eapi2_src_compile
 [31;01m*[0m               ebuild.sh, line  629:  Called die
 [31;01m*[0m The specific snippet of code:
 [31;01m*[0m   		emake || die "emake failed"
 [31;01m*[0m  The die message:
 [31;01m*[0m   emake failed
 [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-chemistry/maid-20011112:20081219-061304.log'.
 [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/maid-20011112/temp/environment'.
 [31;01m*[0m