############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/Harshlight_1.66.0.tar.gz && rm -rf Harshlight.buildbin-libdir && mkdir Harshlight.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Harshlight.buildbin-libdir Harshlight_1.66.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL Harshlight_1.66.0.zip && rm Harshlight_1.66.0.tar.gz Harshlight_1.66.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 102k 100 102k 0 0 533k 0 --:--:-- --:--:-- --:--:-- 536k install for i386 * installing *source* package 'Harshlight' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Harshlight.c -o Harshlight.o Harshlight.c: In function 'extended_defects': Harshlight.c:564:20: warning: variable 'p_num_points' set but not used [-Wunused-but-set-variable] int num_points, *p_num_points; //number of points inside the median kernel ^~~~~~~~~~~~ Harshlight.c: In function 'image_dilation': Harshlight.c:948:10: warning: variable 'cell_value' set but not used [-Wunused-but-set-variable] double cell_value; ^~~~~~~~~~ Harshlight.c: In function 'norm': Harshlight.c:1316:27: warning: unused variable 'sorted2' [-Wunused-variable] double *sorted; double *sorted2; ^~~~~~~ Harshlight.c: In function 'report_overall_header': Harshlight.c:1471:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_text_val, y_text - 215, *diff_br); ^ Harshlight.c:1471:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c:1474:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_text_val, y_text - 230, *diff_dr); ^ Harshlight.c:1474:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c: In function 'chip_summary': Harshlight.c:1532:107: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (Extended defects: the variance of the Error Image explained by the background is %.2f%) show\n", x_text, y_text - 30, *var); ^ Harshlight.c:1532:107: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c:1542:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_val_1, y_text - 100, *perc_c); ^ Harshlight.c:1542:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c:1543:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_val_2, y_text - 100, *perc_d); ^ Harshlight.c:1543:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c: In function 'extended_stop': Harshlight.c:1555:107: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (Extended defects: the variance of the Error Image explained by the background is %.2f%) show\n", x_text, y_text - 30, *var); ^ Harshlight.c:1555:107: warning: unknown conversion type character ')' in format [-Wformat=] C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o Harshlight.dll tmp.def Harshlight.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/Harshlight.buildbin-libdir/00LOCK-Harshlight/00new/Harshlight/libs/i386 ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'Harshlight' finding HTML links ... done HarshComp html HarshExt html Harshlight html sim html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'Harshlight' ... ** libs "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Harshlight.c -o Harshlight.o Harshlight.c: In function 'extended_defects': Harshlight.c:564:20: warning: variable 'p_num_points' set but not used [-Wunused-but-set-variable] int num_points, *p_num_points; //number of points inside the median kernel ^~~~~~~~~~~~ Harshlight.c: In function 'image_dilation': Harshlight.c:948:10: warning: variable 'cell_value' set but not used [-Wunused-but-set-variable] double cell_value; ^~~~~~~~~~ Harshlight.c: In function 'norm': Harshlight.c:1316:27: warning: unused variable 'sorted2' [-Wunused-variable] double *sorted; double *sorted2; ^~~~~~~ Harshlight.c: In function 'report_overall_header': Harshlight.c:1471:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_text_val, y_text - 215, *diff_br); ^ Harshlight.c:1471:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c:1474:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_text_val, y_text - 230, *diff_dr); ^ Harshlight.c:1474:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c: In function 'chip_summary': Harshlight.c:1532:107: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (Extended defects: the variance of the Error Image explained by the background is %.2f%) show\n", x_text, y_text - 30, *var); ^ Harshlight.c:1532:107: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c:1542:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_val_1, y_text - 100, *perc_c); ^ Harshlight.c:1542:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c:1543:26: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (%.2f%) show\n", x_val_2, y_text - 100, *perc_d); ^ Harshlight.c:1543:26: warning: unknown conversion type character ')' in format [-Wformat=] Harshlight.c: In function 'extended_stop': Harshlight.c:1555:107: warning: unknown conversion type character ')' in format [-Wformat=] PP "%d %d moveto (Extended defects: the variance of the Error Image explained by the background is %.2f%) show\n", x_text, y_text - 30, *var); ^ Harshlight.c:1555:107: warning: unknown conversion type character ')' in format [-Wformat=] C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o Harshlight.dll tmp.def Harshlight.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/Harshlight.buildbin-libdir/Harshlight/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'Harshlight' as Harshlight_1.66.0.zip * DONE (Harshlight) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'Harshlight' successfully unpacked and MD5 sums checked