GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `install' does not exist. Must remake target `install'. Invoking recipe from Makefile:4 to update target `install'. Compiling basic programs cd src/leap && make installteLeap GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `installteLeap' does not exist. File `t' does not exist. File `teLeap' does not exist. File `basics.o' does not exist. Must remake target `basics.o'. Invoking builtin recipe to update target `basics.o'. make[1]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/leap' gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o basics.o basics.c Successfully remade target file `basics.o'. File `sysdepend.o' does not exist. Must remake target `sysdepend.o'. Invoking builtin recipe to update target `sysdepend.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o sysdepend.o sysdepend.c Successfully remade target file `sysdepend.o'. File `stringExtra.o' does not exist. Must remake target `stringExtra.o'. Invoking builtin recipe to update target `stringExtra.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o stringExtra.o stringExtra.c Successfully remade target file `stringExtra.o'. File `varArray.o' does not exist. Must remake target `varArray.o'. Invoking builtin recipe to update target `varArray.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o varArray.o varArray.c Successfully remade target file `varArray.o'. File `getline.o' does not exist. Must remake target `getline.o'. Invoking builtin recipe to update target `getline.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o getline.o getline.c Successfully remade target file `getline.o'. File `avl.o' does not exist. Must remake target `avl.o'. Invoking builtin recipe to update target `avl.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o avl.o avl.c Successfully remade target file `avl.o'. File `pdb_format.o' does not exist. Must remake target `pdb_format.o'. Invoking builtin recipe to update target `pdb_format.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o pdb_format.o pdb_format.c Successfully remade target file `pdb_format.o'. File `pdb_read.o' does not exist. Must remake target `pdb_read.o'. Invoking builtin recipe to update target `pdb_read.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o pdb_read.o pdb_read.c Successfully remade target file `pdb_read.o'. File `pdb_sprntf.o' does not exist. Must remake target `pdb_sprntf.o'. Invoking builtin recipe to update target `pdb_sprntf.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o pdb_sprntf.o pdb_sprntf.c Successfully remade target file `pdb_sprntf.o'. File `pdb_sscanf.o' does not exist. Must remake target `pdb_sscanf.o'. Invoking builtin recipe to update target `pdb_sscanf.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o pdb_sscanf.o pdb_sscanf.c Successfully remade target file `pdb_sscanf.o'. File `pdb_write.o' does not exist. Must remake target `pdb_write.o'. Invoking builtin recipe to update target `pdb_write.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o pdb_write.o pdb_write.c Successfully remade target file `pdb_write.o'. File `vector.o' does not exist. Must remake target `vector.o'. Invoking builtin recipe to update target `vector.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o vector.o vector.c Successfully remade target file `vector.o'. File `zMatrix.o' does not exist. Must remake target `zMatrix.o'. Invoking builtin recipe to update target `zMatrix.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o zMatrix.o zMatrix.c Successfully remade target file `zMatrix.o'. File `sort.o' does not exist. Must remake target `sort.o'. Invoking builtin recipe to update target `sort.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o sort.o sort.c Successfully remade target file `sort.o'. File `bag.o' does not exist. Must remake target `bag.o'. Invoking builtin recipe to update target `bag.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o bag.o bag.c Successfully remade target file `bag.o'. File `hash.o' does not exist. Must remake target `hash.o'. Invoking builtin recipe to update target `hash.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o hash.o hash.c Successfully remade target file `hash.o'. File `dictionary.o' does not exist. Must remake target `dictionary.o'. Invoking builtin recipe to update target `dictionary.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o dictionary.o dictionary.c Successfully remade target file `dictionary.o'. File `database.o' does not exist. Must remake target `database.o'. Invoking builtin recipe to update target `database.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o database.o database.c Successfully remade target file `database.o'. File `nVector.o' does not exist. Must remake target `nVector.o'. Invoking builtin recipe to update target `nVector.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o nVector.o nVector.c Successfully remade target file `nVector.o'. File `ring.o' does not exist. Must remake target `ring.o'. Invoking builtin recipe to update target `ring.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o ring.o ring.c Successfully remade target file `ring.o'. File `matrix.o' does not exist. Must remake target `matrix.o'. Invoking builtin recipe to update target `matrix.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o matrix.o matrix.c Successfully remade target file `matrix.o'. File `fortran.o' does not exist. Must remake target `fortran.o'. Invoking builtin recipe to update target `fortran.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o fortran.o fortran.c Successfully remade target file `fortran.o'. File `displayer.o' does not exist. Must remake target `displayer.o'. Invoking builtin recipe to update target `displayer.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o displayer.o displayer.c Successfully remade target file `displayer.o'. File `assoc.o' does not exist. Must remake target `assoc.o'. Invoking builtin recipe to update target `assoc.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o assoc.o assoc.c Successfully remade target file `assoc.o'. File `atom.o' does not exist. Must remake target `atom.o'. Invoking builtin recipe to update target `atom.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o atom.o atom.c Successfully remade target file `atom.o'. File `byteArray.o' does not exist. Must remake target `byteArray.o'. Invoking builtin recipe to update target `byteArray.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o byteArray.o byteArray.c Successfully remade target file `byteArray.o'. File `collection.o' does not exist. Must remake target `collection.o'. Invoking builtin recipe to update target `collection.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o collection.o collection.c Successfully remade target file `collection.o'. File `container.o' does not exist. Must remake target `container.o'. Invoking builtin recipe to update target `container.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o container.o container.c Successfully remade target file `container.o'. File `internal.o' does not exist. Must remake target `internal.o'. Invoking builtin recipe to update target `internal.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o internal.o internal.c Successfully remade target file `internal.o'. File `list.o' does not exist. Must remake target `list.o'. Invoking builtin recipe to update target `list.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o list.o list.c Successfully remade target file `list.o'. File `loop.o' does not exist. Must remake target `loop.o'. Invoking builtin recipe to update target `loop.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o loop.o loop.c Successfully remade target file `loop.o'. File `molecule.o' does not exist. Must remake target `molecule.o'. Invoking builtin recipe to update target `molecule.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o molecule.o molecule.c Successfully remade target file `molecule.o'. File `oDouble.o' does not exist. Must remake target `oDouble.o'. Invoking builtin recipe to update target `oDouble.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o oDouble.o oDouble.c Successfully remade target file `oDouble.o'. File `oInteger.o' does not exist. Must remake target `oInteger.o'. Invoking builtin recipe to update target `oInteger.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o oInteger.o oInteger.c Successfully remade target file `oInteger.o'. File `oString.o' does not exist. Must remake target `oString.o'. Invoking builtin recipe to update target `oString.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o oString.o oString.c Successfully remade target file `oString.o'. File `objekt.o' does not exist. Must remake target `objekt.o'. Invoking builtin recipe to update target `objekt.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o objekt.o objekt.c Successfully remade target file `objekt.o'. File `parmSet.o' does not exist. Must remake target `parmSet.o'. Invoking builtin recipe to update target `parmSet.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o parmSet.o parmSet.c Successfully remade target file `parmSet.o'. File `residue.o' does not exist. Must remake target `residue.o'. Invoking builtin recipe to update target `residue.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o residue.o residue.c residue.c: In function ‘ResidueConnect’: residue.c:336:17: warning: passing argument 1 of ‘AtomBondTo’ from incompatible pointer type [enabled by default] atom.h:300:25: note: expected ‘ATOM’ but argument is of type ‘OBJEKT’ residue.c:336:17: warning: passing argument 2 of ‘AtomBondTo’ from incompatible pointer type [enabled by default] atom.h:300:25: note: expected ‘ATOM’ but argument is of type ‘OBJEKT’ residue.c: In function ‘ResidueMutate’: residue.c:464:5: warning: passing argument 1 of ‘BuildFixInternals’ from incompatible pointer type [enabled by default] build.h:57:14: note: expected ‘UNIT’ but argument is of type ‘RESIDUE’ Successfully remade target file `residue.o'. File `unit.o' does not exist. Must remake target `unit.o'. Invoking builtin recipe to update target `unit.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o unit.o unit.c Successfully remade target file `unit.o'. File `unitio.o' does not exist. Must remake target `unitio.o'. Invoking builtin recipe to update target `unitio.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o unitio.o unitio.c unitio.c: In function ‘zUnitIOSaveAmberParmFormat’: unitio.c:4066:27: warning: passing argument 1 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ unitio.c:4066:27: warning: passing argument 4 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ unitio.c: In function ‘zUnitIOSaveAmberParmFormat_old’: unitio.c:6137:33: warning: passing argument 1 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ unitio.c:6137:33: warning: passing argument 4 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ Successfully remade target file `unitio.o'. File `tripos.o' does not exist. Must remake target `tripos.o'. Invoking builtin recipe to update target `tripos.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o tripos.o tripos.c Successfully remade target file `tripos.o'. File `graphUtil.o' does not exist. Must remake target `graphUtil.o'. Invoking builtin recipe to update target `graphUtil.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o graphUtil.o graphUtil.c graphUtil.c: In function ‘GraphUtilFindAllSmallestRingsAndRingGroups’: graphUtil.c:675:5: warning: passing argument 1 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘struct RINGSORTt *’ graphUtil.c:675:5: warning: passing argument 4 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ Successfully remade target file `graphUtil.o'. File `select.o' does not exist. Must remake target `select.o'. Invoking builtin recipe to update target `select.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o select.o select.c Successfully remade target file `select.o'. File `amber.o' does not exist. Must remake target `amber.o'. Invoking builtin recipe to update target `amber.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o amber.o amber.c amber.c: In function ‘uAmberReadUnitFromPrep’: amber.c:1039:25: warning: passing argument 1 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘struct INPUTLINEt *’ amber.c:1039:25: warning: passing argument 4 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ Successfully remade target file `amber.o'. File `build.o' does not exist. Must remake target `build.o'. Invoking builtin recipe to update target `build.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o build.o build.c build.c: In function ‘bBuildFlipChiralityFor’: build.c:1902:4: warning: passing argument 1 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘struct COUNTATOMSt *’ build.c:1902:4: warning: passing argument 4 of ‘SortByInteger’ from incompatible pointer type [enabled by default] sort.h:46:13: note: expected ‘GENP’ but argument is of type ‘int *’ build.c:1908:5: warning: passing argument 1 of ‘GraphUtilFindAllSmallestRings’ from incompatible pointer type [enabled by default] graphUtil.h:59:13: note: expected ‘UNIT’ but argument is of type ‘CONTAINER’ build.c: In function ‘BuildInternalsForSimpleRings’: build.c:2186:5: warning: passing argument 1 of ‘GraphUtilFindAllSmallestRingsAndRingGroups’ from incompatible pointer type [enabled by default] graphUtil.h:56:13: note: expected ‘UNIT’ but argument is of type ‘CONTAINER’ Successfully remade target file `build.o'. File `elements.o' does not exist. Must remake target `elements.o'. Invoking builtin recipe to update target `elements.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o elements.o elements.c Successfully remade target file `elements.o'. File `library.o' does not exist. Must remake target `library.o'. Invoking builtin recipe to update target `library.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o library.o library.c Successfully remade target file `library.o'. File `chirality.o' does not exist. Must remake target `chirality.o'. Invoking builtin recipe to update target `chirality.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o chirality.o chirality.c Successfully remade target file `chirality.o'. File `minimizer.o' does not exist. Must remake target `minimizer.o'. Invoking builtin recipe to update target `minimizer.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o minimizer.o minimizer.c Successfully remade target file `minimizer.o'. File `model.o' does not exist. Must remake target `model.o'. Invoking builtin recipe to update target `model.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o model.o model.c model.c: In function ‘zModelOrderAtoms’: model.c:499:3: warning: passing argument 1 of ‘Sift’ from incompatible pointer type [enabled by default] sort.h:55:13: note: expected ‘GENP’ but argument is of type ‘struct MODELATOMt *’ Successfully remade target file `model.o'. File `parmLib.o' does not exist. Must remake target `parmLib.o'. Invoking builtin recipe to update target `parmLib.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o parmLib.o parmLib.c Successfully remade target file `parmLib.o'. File `pdbFile.o' does not exist. Must remake target `pdbFile.o'. Invoking builtin recipe to update target `pdbFile.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o pdbFile.o pdbFile.c pdbFile.c: In function ‘zPdbBuildCoordinatesForContainer’: pdbFile.c:1071:5: warning: passing argument 1 of ‘BuildFixInternals’ from incompatible pointer type [enabled by default] build.h:57:14: note: expected ‘UNIT’ but argument is of type ‘CONTAINER’ pdbFile.c: In function ‘zPdbAddAtom’: pdbFile.c:1190:9: warning: passing argument 1 of ‘BuildInternalsForContainer’ from incompatible pointer type [enabled by default] build.h:54:14: note: expected ‘CONTAINER’ but argument is of type ‘UNIT’ pdbFile.c: In function ‘writeTER’: pdbFile.c:1744:25: warning: initialization from incompatible pointer type [enabled by default] Successfully remade target file `pdbFile.o'. File `mol2File.o' does not exist. Must remake target `mol2File.o'. Invoking builtin recipe to update target `mol2File.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o mol2File.o mol2File.c Successfully remade target file `mol2File.o'. File `tools.o' does not exist. Must remake target `tools.o'. Invoking builtin recipe to update target `tools.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o tools.o tools.c tools.c: In function ‘iToolDistanceSearch’: tools.c:1648:9: warning: passing argument 1 of ‘SortByDouble’ from incompatible pointer type [enabled by default] sort.h:48:13: note: expected ‘GENP’ but argument is of type ‘struct PAIRt *’ tools.c:1648:9: warning: passing argument 4 of ‘SortByDouble’ from incompatible pointer type [enabled by default] sort.h:48:13: note: expected ‘GENP’ but argument is of type ‘double *’ tools.c: In function ‘ToolOrientPrincipleAxisAlongCoordinateAxis’: tools.c:1719:5: warning: passing argument 2 of ‘MathOpDiagonalize’ from incompatible pointer type [enabled by default] mathop.h:48:13: note: expected ‘VECTORASPTR’ but argument is of type ‘struct VECTOR *’ Successfully remade target file `tools.o'. File `variables.o' does not exist. Must remake target `variables.o'. Invoking builtin recipe to update target `variables.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o variables.o variables.c Successfully remade target file `variables.o'. File `parser.o' does not exist. Must remake target `parser.o'. Invoking builtin recipe to update target `parser.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o parser.o parser.c Successfully remade target file `parser.o'. File `help.o' does not exist. Must remake target `help.o'. Invoking builtin recipe to update target `help.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o help.o help.c Successfully remade target file `help.o'. File `helptext.o' does not exist. File `helptext.c' does not exist. File `utilMakeHelp' does not exist. File `utilMakeHelp.o' does not exist. Must remake target `utilMakeHelp.o'. Invoking builtin recipe to update target `utilMakeHelp.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o utilMakeHelp.o utilMakeHelp.c Successfully remade target file `utilMakeHelp.o'. Must remake target `utilMakeHelp'. Invoking recipe from Makefile:191 to update target `utilMakeHelp'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o utilMakeHelp basics.o sysdepend.o stringExtra.o varArray.o getline.o avl.o pdb_format.o pdb_read.o pdb_sprntf.o pdb_sscanf.o pdb_write.o vector.o zMatrix.o sort.o bag.o hash.o dictionary.o database.o nVector.o ring.o matrix.o fortran.o displayer.o utilMakeHelp.o -lm Successfully remade target file `utilMakeHelp'. Must remake target `helptext.c'. Invoking recipe from Makefile:224 to update target `helptext.c'. ./utilMakeHelp helptext.text helptext.c Successfully remade target file `helptext.c'. Must remake target `helptext.o'. Invoking builtin recipe to update target `helptext.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o helptext.o helptext.c Successfully remade target file `helptext.o'. File `octree.o' does not exist. Must remake target `octree.o'. Invoking builtin recipe to update target `octree.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o octree.o octree.c Successfully remade target file `octree.o'. File `commands.o' does not exist. Must remake target `commands.o'. Invoking builtin recipe to update target `commands.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o commands.o commands.c Successfully remade target file `commands.o'. File `mathop.o' does not exist. Must remake target `mathop.o'. Invoking builtin recipe to update target `mathop.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o mathop.o mathop.c Successfully remade target file `mathop.o'. File `block.o' does not exist. Must remake target `block.o'. Invoking builtin recipe to update target `block.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o block.o block.c Successfully remade target file `block.o'. File `restraint.o' does not exist. Must remake target `restraint.o'. Invoking builtin recipe to update target `restraint.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o restraint.o restraint.c Successfully remade target file `restraint.o'. File `hybrid.o' does not exist. Must remake target `hybrid.o'. Invoking builtin recipe to update target `hybrid.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o hybrid.o hybrid.c Successfully remade target file `hybrid.o'. File `tLeap.o' does not exist. Must remake target `tLeap.o'. Invoking builtin recipe to update target `tLeap.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o tLeap.o tLeap.c Successfully remade target file `tLeap.o'. Must remake target `teLeap'. Invoking recipe from Makefile:183 to update target `teLeap'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ \ -o teLeap basics.o sysdepend.o stringExtra.o varArray.o getline.o avl.o pdb_format.o pdb_read.o pdb_sprntf.o pdb_sscanf.o pdb_write.o vector.o zMatrix.o sort.o bag.o hash.o dictionary.o database.o nVector.o ring.o matrix.o fortran.o displayer.o assoc.o atom.o byteArray.o collection.o container.o internal.o list.o loop.o molecule.o oDouble.o oInteger.o oString.o objekt.o parmSet.o residue.o unit.o unitio.o tripos.o graphUtil.o select.o amber.o build.o elements.o library.o chirality.o minimizer.o model.o parmLib.o pdbFile.o mol2File.o tools.o variables.o parser.o help.o helptext.o octree.o commands.o mathop.o block.o restraint.o hybrid.o tLeap.o -lm Successfully remade target file `teLeap'. Must remake target `t'. Successfully remade target file `t'. Must remake target `installteLeap'. Invoking recipe from Makefile:177 to update target `installteLeap'. mv teLeap /usr/local/apps/amber/11-1.5/bin Successfully remade target file `installteLeap'. make[1]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/leap' Copying shell script cp tleap /usr/local/apps/amber/11-1.5/bin/tleap chmod +x /usr/local/apps/amber/11-1.5/bin/tleap make install_xleap GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `install_xleap' does not exist. Must remake target `install_xleap'. Invoking recipe from Makefile:18 to update target `install_xleap'. make[1]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap' cd src/Wc && make GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `libWcLeap.a' does not exist. File `MapAg.o' does not exist. Must remake target `MapAg.o'. Invoking recipe from Makefile:43 to update target `MapAg.o'. make[2]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Wc' gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o MapAg.o MapAg.c MapAg.c: In function ‘MapAg_FirstGuessAtHashAlgorithm’: MapAg.c:191:17: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:210:17: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:227:17: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c: In function ‘MapAg_ReHashUnderCollisionLimit’: MapAg.c:290:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:290:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:290:14: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:309:26: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:309:26: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:309:26: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c: In function ‘MapAg_ReHash’: MapAg.c:349:22: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:349:22: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:349:22: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c: In function ‘MapAg_Find_Normal’: MapAg.c:455:29: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:455:29: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:455:29: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c: In function ‘MapAg_Define_Initial’: MapAg.c:492:19: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:492:19: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:492:19: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c: In function ‘MapAg_Define_Normal’: MapAg.c:505:11: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:505:11: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:505:11: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:527:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:527:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:527:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:532:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:532:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:532:15: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c: In function ‘MapAg_Forget_Normal’: MapAg.c:608:16: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:608:16: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] MapAg.c:608:16: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] Successfully remade target file `MapAg.o'. File `WcActCB.o' does not exist. Must remake target `WcActCB.o'. Invoking recipe from Makefile:43 to update target `WcActCB.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcActCB.o WcActCB.c Successfully remade target file `WcActCB.o'. File `WcConvert.o' does not exist. Must remake target `WcConvert.o'. Invoking recipe from Makefile:43 to update target `WcConvert.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcConvert.o WcConvert.c WcConvert.c: In function ‘WcxClosureFromSeg’: WcConvert.c:504:12: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcConvert.c:510:6: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcConvert.c: In function ‘WcxBuildCallbackList’: WcConvert.c:592:28: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `WcConvert.o'. File `WcCreate.o' does not exist. Must remake target `WcCreate.o'. Invoking recipe from Makefile:43 to update target `WcCreate.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcCreate.o WcCreate.c WcCreate.c: In function ‘WcxCreateFromQuark’: WcCreate.c:321:20: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcCreate.c:323:20: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcCreate.c:350:14: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcCreate.c:352:14: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcCreate.c:354:14: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `WcCreate.o'. File `WcInvoke.o' does not exist. Must remake target `WcInvoke.o'. Invoking recipe from Makefile:43 to update target `WcInvoke.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcInvoke.o WcInvoke.c Successfully remade target file `WcInvoke.o'. File `WcLateBind.o' does not exist. Must remake target `WcLateBind.o'. Invoking recipe from Makefile:43 to update target `WcLateBind.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcLateBind.o WcLateBind.c WcLateBind.c: In function ‘WcxLateBinder_BindFromRegistration’: WcLateBind.c:394:13: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcLateBind.c:394:13: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcLateBind.c:400:13: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcLateBind.c: In function ‘WcxFindObject_DefaultSearch’: WcLateBind.c:434:11: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `WcLateBind.o'. File `WcLoadRes.o' does not exist. Must remake target `WcLoadRes.o'. Invoking recipe from Makefile:43 to update target `WcLoadRes.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcLoadRes.o WcLoadRes.c WcLoadRes.c: In function ‘WcLoadResourceFile’: WcLoadRes.c:145:10: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcLoadRes.c:150:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `WcLoadRes.o'. File `WcName.o' does not exist. Must remake target `WcName.o'. Invoking recipe from Makefile:43 to update target `WcName.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcName.o WcName.c Successfully remade target file `WcName.o'. File `WcReg.o' does not exist. Must remake target `WcReg.o'. Invoking recipe from Makefile:43 to update target `WcReg.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcReg.o WcReg.c WcReg.c: In function ‘WcRegisterClassPtr’: WcReg.c:47:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcRegisterClassName’: WcReg.c:55:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcRegisterConstructor’: WcReg.c:69:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcRegisterDynamicLibs’: WcReg.c:125:2: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcRegisterCallback’: WcReg.c:169:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcRegisterMethod’: WcReg.c:203:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c:203:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcAttachThisToWidget’: WcReg.c:227:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcReg.c: In function ‘WcDetachThisFromWidget’: WcReg.c:239:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `WcReg.o'. File `WcRegXt.o' does not exist. Must remake target `WcRegXt.o'. Invoking recipe from Makefile:43 to update target `WcRegXt.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcRegXt.o WcRegXt.c Successfully remade target file `WcRegXt.o'. File `WcSetValue.o' does not exist. Must remake target `WcSetValue.o'. Invoking recipe from Makefile:43 to update target `WcSetValue.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcSetValue.o WcSetValue.c Successfully remade target file `WcSetValue.o'. File `WcTemplate.o' does not exist. Must remake target `WcTemplate.o'. Invoking recipe from Makefile:43 to update target `WcTemplate.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcTemplate.o WcTemplate.c WcTemplate.c: In function ‘WcxDumpEntry’: WcTemplate.c:285:29: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] WcTemplate.c:288:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] WcTemplate.c: In function ‘WcTemplateInitialize’: WcTemplate.c:476:9: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcTemplate.c:476:9: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] WcTemplate.c:493:6: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcTemplate.c:507:6: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] WcTemplate.c: In function ‘WcApplyTemplate’: WcTemplate.c:645:31: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `WcTemplate.o'. File `WcWarn.o' does not exist. Must remake target `WcWarn.o'. Invoking recipe from Makefile:43 to update target `WcWarn.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcWarn.o WcWarn.c Successfully remade target file `WcWarn.o'. File `WcNameWidget.o' does not exist. Must remake target `WcNameWidget.o'. Invoking recipe from Makefile:43 to update target `WcNameWidget.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WcNameWidget.o WcNameWidget.c Successfully remade target file `WcNameWidget.o'. Must remake target `libWcLeap.a'. Invoking recipe from Makefile:46 to update target `libWcLeap.a'. ar rv libWcLeap.a MapAg.o WcActCB.o WcConvert.o WcCreate.o WcInvoke.o WcLateBind.o WcLoadRes.o WcName.o WcReg.o WcRegXt.o WcSetValue.o WcTemplate.o WcWarn.o WcNameWidget.o ar: creating libWcLeap.a a - MapAg.o a - WcActCB.o a - WcConvert.o a - WcCreate.o a - WcInvoke.o a - WcLateBind.o a - WcLoadRes.o a - WcName.o a - WcReg.o a - WcRegXt.o a - WcSetValue.o a - WcTemplate.o a - WcWarn.o a - WcNameWidget.o ranlib libWcLeap.a Successfully remade target file `libWcLeap.a'. make[2]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Wc' cd src/Xmu && make GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `libXmu.a' does not exist. File `AllCmap.o' does not exist. Must remake target `AllCmap.o'. Invoking recipe from Makefile:122 to update target `AllCmap.o'. make[2]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Xmu' gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o AllCmap.o AllCmap.c Successfully remade target file `AllCmap.o'. File `Atoms.o' does not exist. Must remake target `Atoms.o'. Invoking recipe from Makefile:122 to update target `Atoms.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Atoms.o Atoms.c Successfully remade target file `Atoms.o'. File `ClientWin.o' does not exist. Must remake target `ClientWin.o'. Invoking recipe from Makefile:122 to update target `ClientWin.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o ClientWin.o ClientWin.c Successfully remade target file `ClientWin.o'. File `Clip.o' does not exist. Must remake target `Clip.o'. Invoking recipe from Makefile:122 to update target `Clip.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Clip.o Clip.c Successfully remade target file `Clip.o'. File `CloseHook.o' does not exist. Must remake target `CloseHook.o'. Invoking recipe from Makefile:122 to update target `CloseHook.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CloseHook.o CloseHook.c Successfully remade target file `CloseHook.o'. File `CmapAlloc.o' does not exist. Must remake target `CmapAlloc.o'. Invoking recipe from Makefile:122 to update target `CmapAlloc.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CmapAlloc.o CmapAlloc.c Successfully remade target file `CmapAlloc.o'. File `CrCmap.o' does not exist. Must remake target `CrCmap.o'. Invoking recipe from Makefile:122 to update target `CrCmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CrCmap.o CrCmap.c Successfully remade target file `CrCmap.o'. File `CrPixFBit.o' does not exist. Must remake target `CrPixFBit.o'. Invoking recipe from Makefile:122 to update target `CrPixFBit.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CrPixFBit.o CrPixFBit.c Successfully remade target file `CrPixFBit.o'. File `CursorName.o' does not exist. Must remake target `CursorName.o'. Invoking recipe from Makefile:122 to update target `CursorName.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CursorName.o CursorName.c Successfully remade target file `CursorName.o'. File `CvtCache.o' does not exist. Must remake target `CvtCache.o'. Invoking recipe from Makefile:122 to update target `CvtCache.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CvtCache.o CvtCache.c Successfully remade target file `CvtCache.o'. File `CvtStdSel.o' does not exist. Must remake target `CvtStdSel.o'. Invoking recipe from Makefile:122 to update target `CvtStdSel.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o CvtStdSel.o CvtStdSel.c Successfully remade target file `CvtStdSel.o'. File `DefErrMsg.o' does not exist. Must remake target `DefErrMsg.o'. Invoking recipe from Makefile:122 to update target `DefErrMsg.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o DefErrMsg.o DefErrMsg.c Successfully remade target file `DefErrMsg.o'. File `DelCmap.o' does not exist. Must remake target `DelCmap.o'. Invoking recipe from Makefile:122 to update target `DelCmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o DelCmap.o DelCmap.c Successfully remade target file `DelCmap.o'. File `DisplayQue.o' does not exist. Must remake target `DisplayQue.o'. Invoking recipe from Makefile:122 to update target `DisplayQue.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o DisplayQue.o DisplayQue.c Successfully remade target file `DisplayQue.o'. File `Distinct.o' does not exist. Must remake target `Distinct.o'. Invoking recipe from Makefile:122 to update target `Distinct.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Distinct.o Distinct.c Successfully remade target file `Distinct.o'. File `DrawLogo.o' does not exist. Must remake target `DrawLogo.o'. Invoking recipe from Makefile:122 to update target `DrawLogo.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o DrawLogo.o DrawLogo.c Successfully remade target file `DrawLogo.o'. File `DrRndRect.o' does not exist. Must remake target `DrRndRect.o'. Invoking recipe from Makefile:122 to update target `DrRndRect.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o DrRndRect.o DrRndRect.c Successfully remade target file `DrRndRect.o'. File `EditresCom.o' does not exist. Must remake target `EditresCom.o'. Invoking recipe from Makefile:122 to update target `EditresCom.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o EditresCom.o EditresCom.c Successfully remade target file `EditresCom.o'. File `ExtAgent.o' does not exist. Must remake target `ExtAgent.o'. Invoking recipe from Makefile:122 to update target `ExtAgent.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o ExtAgent.o ExtAgent.c Successfully remade target file `ExtAgent.o'. File `FToCback.o' does not exist. Must remake target `FToCback.o'. Invoking recipe from Makefile:122 to update target `FToCback.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o FToCback.o FToCback.c Successfully remade target file `FToCback.o'. File `GetHost.o' does not exist. Must remake target `GetHost.o'. Invoking recipe from Makefile:122 to update target `GetHost.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o GetHost.o GetHost.c Successfully remade target file `GetHost.o'. File `GrayPixmap.o' does not exist. Must remake target `GrayPixmap.o'. Invoking recipe from Makefile:122 to update target `GrayPixmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o GrayPixmap.o GrayPixmap.c Successfully remade target file `GrayPixmap.o'. File `Initer.o' does not exist. Must remake target `Initer.o'. Invoking recipe from Makefile:122 to update target `Initer.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Initer.o Initer.c Successfully remade target file `Initer.o'. File `LocBitmap.o' does not exist. Must remake target `LocBitmap.o'. Invoking recipe from Makefile:122 to update target `LocBitmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o LocBitmap.o LocBitmap.c Successfully remade target file `LocBitmap.o'. File `Lookup.o' does not exist. Must remake target `Lookup.o'. Invoking recipe from Makefile:122 to update target `Lookup.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Lookup.o Lookup.c Successfully remade target file `Lookup.o'. File `LookupCmap.o' does not exist. Must remake target `LookupCmap.o'. Invoking recipe from Makefile:122 to update target `LookupCmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o LookupCmap.o LookupCmap.c Successfully remade target file `LookupCmap.o'. File `Lower.o' does not exist. Must remake target `Lower.o'. Invoking recipe from Makefile:122 to update target `Lower.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Lower.o Lower.c Successfully remade target file `Lower.o'. File `RdBitF.o' does not exist. Must remake target `RdBitF.o'. Invoking recipe from Makefile:122 to update target `RdBitF.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o RdBitF.o RdBitF.c Successfully remade target file `RdBitF.o'. File `ScrOfWin.o' does not exist. Must remake target `ScrOfWin.o'. Invoking recipe from Makefile:122 to update target `ScrOfWin.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o ScrOfWin.o ScrOfWin.c Successfully remade target file `ScrOfWin.o'. File `ShapeWidg.o' does not exist. Must remake target `ShapeWidg.o'. Invoking recipe from Makefile:122 to update target `ShapeWidg.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o ShapeWidg.o ShapeWidg.c Successfully remade target file `ShapeWidg.o'. File `StdCmap.o' does not exist. Must remake target `StdCmap.o'. Invoking recipe from Makefile:122 to update target `StdCmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StdCmap.o StdCmap.c Successfully remade target file `StdCmap.o'. File `StrToBS.o' does not exist. Must remake target `StrToBS.o'. Invoking recipe from Makefile:122 to update target `StrToBS.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToBS.o StrToBS.c Successfully remade target file `StrToBS.o'. File `StrToBmap.o' does not exist. Must remake target `StrToBmap.o'. Invoking recipe from Makefile:122 to update target `StrToBmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToBmap.o StrToBmap.c Successfully remade target file `StrToBmap.o'. File `StrToCurs.o' does not exist. Must remake target `StrToCurs.o'. Invoking recipe from Makefile:122 to update target `StrToCurs.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToCurs.o StrToCurs.c Successfully remade target file `StrToCurs.o'. File `StrToGrav.o' does not exist. Must remake target `StrToGrav.o'. Invoking recipe from Makefile:122 to update target `StrToGrav.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToGrav.o StrToGrav.c Successfully remade target file `StrToGrav.o'. File `StrToJust.o' does not exist. Must remake target `StrToJust.o'. Invoking recipe from Makefile:122 to update target `StrToJust.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToJust.o StrToJust.c Successfully remade target file `StrToJust.o'. File `StrToLong.o' does not exist. Must remake target `StrToLong.o'. Invoking recipe from Makefile:122 to update target `StrToLong.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToLong.o StrToLong.c Successfully remade target file `StrToLong.o'. File `StrToOrnt.o' does not exist. Must remake target `StrToOrnt.o'. Invoking recipe from Makefile:122 to update target `StrToOrnt.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToOrnt.o StrToOrnt.c Successfully remade target file `StrToOrnt.o'. File `StrToShap.o' does not exist. Must remake target `StrToShap.o'. Invoking recipe from Makefile:122 to update target `StrToShap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToShap.o StrToShap.c Successfully remade target file `StrToShap.o'. File `StrToWidg.o' does not exist. Must remake target `StrToWidg.o'. Invoking recipe from Makefile:122 to update target `StrToWidg.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StrToWidg.o StrToWidg.c Successfully remade target file `StrToWidg.o'. File `UpdMapHint.o' does not exist. Must remake target `UpdMapHint.o'. Invoking recipe from Makefile:122 to update target `UpdMapHint.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o UpdMapHint.o UpdMapHint.c Successfully remade target file `UpdMapHint.o'. File `VisCmap.o' does not exist. Must remake target `VisCmap.o'. Invoking recipe from Makefile:122 to update target `VisCmap.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o VisCmap.o VisCmap.c Successfully remade target file `VisCmap.o'. File `WidgetNode.o' does not exist. Must remake target `WidgetNode.o'. Invoking recipe from Makefile:122 to update target `WidgetNode.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o WidgetNode.o WidgetNode.c Successfully remade target file `WidgetNode.o'. File `Xct.o' does not exist. Must remake target `Xct.o'. Invoking recipe from Makefile:122 to update target `Xct.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Xct.o Xct.c Successfully remade target file `Xct.o'. Must remake target `libXmu.a'. Invoking recipe from Makefile:125 to update target `libXmu.a'. ar rv libXmu.a AllCmap.o Atoms.o ClientWin.o Clip.o CloseHook.o CmapAlloc.o CrCmap.o CrPixFBit.o CursorName.o CvtCache.o CvtStdSel.o DefErrMsg.o DelCmap.o DisplayQue.o Distinct.o DrawLogo.o DrRndRect.o EditresCom.o ExtAgent.o FToCback.o GetHost.o GrayPixmap.o Initer.o LocBitmap.o Lookup.o LookupCmap.o Lower.o RdBitF.o ScrOfWin.o ShapeWidg.o StdCmap.o StrToBS.o StrToBmap.o StrToCurs.o StrToGrav.o StrToJust.o StrToLong.o StrToOrnt.o StrToShap.o StrToWidg.o UpdMapHint.o VisCmap.o WidgetNode.o Xct.o ar: creating libXmu.a a - AllCmap.o a - Atoms.o a - ClientWin.o a - Clip.o a - CloseHook.o a - CmapAlloc.o a - CrCmap.o a - CrPixFBit.o a - CursorName.o a - CvtCache.o a - CvtStdSel.o a - DefErrMsg.o a - DelCmap.o a - DisplayQue.o a - Distinct.o a - DrawLogo.o a - DrRndRect.o a - EditresCom.o a - ExtAgent.o a - FToCback.o a - GetHost.o a - GrayPixmap.o a - Initer.o a - LocBitmap.o a - Lookup.o a - LookupCmap.o a - Lower.o a - RdBitF.o a - ScrOfWin.o a - ShapeWidg.o a - StdCmap.o a - StrToBS.o a - StrToBmap.o a - StrToCurs.o a - StrToGrav.o a - StrToJust.o a - StrToLong.o a - StrToOrnt.o a - StrToShap.o a - StrToWidg.o a - UpdMapHint.o a - VisCmap.o a - WidgetNode.o a - Xct.o ranlib libXmu.a Successfully remade target file `libXmu.a'. make[2]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Xmu' cd src/Xpm && make GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `libXpm.a' does not exist. File `data.o' does not exist. Must remake target `data.o'. Invoking recipe from Makefile:10 to update target `data.o'. make[2]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Xpm' gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o data.o data.c Successfully remade target file `data.o'. File `create.o' does not exist. Must remake target `create.o'. Invoking recipe from Makefile:10 to update target `create.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o create.o create.c Successfully remade target file `create.o'. File `misc.o' does not exist. Must remake target `misc.o'. Invoking recipe from Makefile:10 to update target `misc.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o misc.o misc.c Successfully remade target file `misc.o'. File `rgb.o' does not exist. Must remake target `rgb.o'. Invoking recipe from Makefile:10 to update target `rgb.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o rgb.o rgb.c Successfully remade target file `rgb.o'. File `scan.o' does not exist. Must remake target `scan.o'. Invoking recipe from Makefile:10 to update target `scan.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o scan.o scan.c Successfully remade target file `scan.o'. File `parse.o' does not exist. Must remake target `parse.o'. Invoking recipe from Makefile:10 to update target `parse.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o parse.o parse.c parse.c: In function ‘ParseColors’: parse.c:317:47: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] parse.c:399:47: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] parse.c: In function ‘ParsePixels’: parse.c:526:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] Successfully remade target file `parse.o'. File `hashtable.o' does not exist. Must remake target `hashtable.o'. Invoking recipe from Makefile:10 to update target `hashtable.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o hashtable.o hashtable.c Successfully remade target file `hashtable.o'. File `XpmCrBufFrI.o' does not exist. Must remake target `XpmCrBufFrI.o'. Invoking recipe from Makefile:10 to update target `XpmCrBufFrI.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrBufFrI.o XpmCrBufFrI.c Successfully remade target file `XpmCrBufFrI.o'. File `XpmCrDataFrP.o' does not exist. Must remake target `XpmCrDataFrP.o'. Invoking recipe from Makefile:10 to update target `XpmCrDataFrP.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrDataFrP.o XpmCrDataFrP.c Successfully remade target file `XpmCrDataFrP.o'. File `XpmCrPFrBuf.o' does not exist. Must remake target `XpmCrPFrBuf.o'. Invoking recipe from Makefile:10 to update target `XpmCrPFrBuf.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrPFrBuf.o XpmCrPFrBuf.c Successfully remade target file `XpmCrPFrBuf.o'. File `XpmRdFToI.o' does not exist. Must remake target `XpmRdFToI.o'. Invoking recipe from Makefile:10 to update target `XpmRdFToI.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmRdFToI.o XpmRdFToI.c Successfully remade target file `XpmRdFToI.o'. File `XpmWrFFrI.o' does not exist. Must remake target `XpmWrFFrI.o'. Invoking recipe from Makefile:10 to update target `XpmWrFFrI.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmWrFFrI.o XpmWrFFrI.c Successfully remade target file `XpmWrFFrI.o'. File `XpmCrBufFrP.o' does not exist. Must remake target `XpmCrBufFrP.o'. Invoking recipe from Makefile:10 to update target `XpmCrBufFrP.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrBufFrP.o XpmCrBufFrP.c Successfully remade target file `XpmCrBufFrP.o'. File `XpmCrIFrBuf.o' does not exist. Must remake target `XpmCrIFrBuf.o'. Invoking recipe from Makefile:10 to update target `XpmCrIFrBuf.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrIFrBuf.o XpmCrIFrBuf.c Successfully remade target file `XpmCrIFrBuf.o'. File `XpmCrPFrData.o' does not exist. Must remake target `XpmCrPFrData.o'. Invoking recipe from Makefile:10 to update target `XpmCrPFrData.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrPFrData.o XpmCrPFrData.c Successfully remade target file `XpmCrPFrData.o'. File `XpmRdFToP.o' does not exist. Must remake target `XpmRdFToP.o'. Invoking recipe from Makefile:10 to update target `XpmRdFToP.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmRdFToP.o XpmRdFToP.c Successfully remade target file `XpmRdFToP.o'. File `XpmWrFFrP.o' does not exist. Must remake target `XpmWrFFrP.o'. Invoking recipe from Makefile:10 to update target `XpmWrFFrP.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmWrFFrP.o XpmWrFFrP.c Successfully remade target file `XpmWrFFrP.o'. File `XpmCrDataFrI.o' does not exist. Must remake target `XpmCrDataFrI.o'. Invoking recipe from Makefile:10 to update target `XpmCrDataFrI.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrDataFrI.o XpmCrDataFrI.c Successfully remade target file `XpmCrDataFrI.o'. File `XpmCrIFrData.o' does not exist. Must remake target `XpmCrIFrData.o'. Invoking recipe from Makefile:10 to update target `XpmCrIFrData.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmCrIFrData.o XpmCrIFrData.c Successfully remade target file `XpmCrIFrData.o'. File `XpmRdFToData.o' does not exist. Must remake target `XpmRdFToData.o'. Invoking recipe from Makefile:10 to update target `XpmRdFToData.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmRdFToData.o XpmRdFToData.c Successfully remade target file `XpmRdFToData.o'. File `XpmWrFFrData.o' does not exist. Must remake target `XpmWrFFrData.o'. Invoking recipe from Makefile:10 to update target `XpmWrFFrData.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XpmWrFFrData.o XpmWrFFrData.c Successfully remade target file `XpmWrFFrData.o'. Must remake target `libXpm.a'. Invoking recipe from Makefile:13 to update target `libXpm.a'. ar rv libXpm.a data.o create.o misc.o rgb.o scan.o parse.o hashtable.o XpmCrBufFrI.o XpmCrDataFrP.o XpmCrPFrBuf.o XpmRdFToI.o XpmWrFFrI.o XpmCrBufFrP.o XpmCrIFrBuf.o XpmCrPFrData.o XpmRdFToP.o XpmWrFFrP.o XpmCrDataFrI.o XpmCrIFrData.o XpmRdFToData.o XpmWrFFrData.o ar: creating libXpm.a a - data.o a - create.o a - misc.o a - rgb.o a - scan.o a - parse.o a - hashtable.o a - XpmCrBufFrI.o a - XpmCrDataFrP.o a - XpmCrPFrBuf.o a - XpmRdFToI.o a - XpmWrFFrI.o a - XpmCrBufFrP.o a - XpmCrIFrBuf.o a - XpmCrPFrData.o a - XpmRdFToP.o a - XpmWrFFrP.o a - XpmCrDataFrI.o a - XpmCrIFrData.o a - XpmRdFToData.o a - XpmWrFFrData.o ranlib libXpm.a Successfully remade target file `libXpm.a'. make[2]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Xpm' cd src/Xraw && make GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `libXaw.a' does not exist. File `3d.o' does not exist. Must remake target `3d.o'. Invoking recipe from Makefile:10 to update target `3d.o'. make[2]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Xraw' gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o 3d.o 3d.c Successfully remade target file `3d.o'. File `AllWidgets.o' does not exist. Must remake target `AllWidgets.o'. Invoking recipe from Makefile:10 to update target `AllWidgets.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o AllWidgets.o AllWidgets.c Successfully remade target file `AllWidgets.o'. File `Arrow.o' does not exist. Must remake target `Arrow.o'. Invoking recipe from Makefile:10 to update target `Arrow.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Arrow.o Arrow.c Successfully remade target file `Arrow.o'. File `AsciiSink.o' does not exist. Must remake target `AsciiSink.o'. Invoking recipe from Makefile:10 to update target `AsciiSink.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o AsciiSink.o AsciiSink.c Successfully remade target file `AsciiSink.o'. File `AsciiSrc.o' does not exist. Must remake target `AsciiSrc.o'. Invoking recipe from Makefile:10 to update target `AsciiSrc.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o AsciiSrc.o AsciiSrc.c AsciiSrc.c: In function ‘MyStrncpy’: AsciiSrc.c:1181:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1181:26: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1181:38: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1181:51: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1185:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1185:27: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1185:38: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1185:48: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1192:13: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1192:27: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1192:38: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] AsciiSrc.c:1192:48: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] Successfully remade target file `AsciiSrc.o'. File `AsciiText.o' does not exist. Must remake target `AsciiText.o'. Invoking recipe from Makefile:10 to update target `AsciiText.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o AsciiText.o AsciiText.c Successfully remade target file `AsciiText.o'. File `Box.o' does not exist. Must remake target `Box.o'. Invoking recipe from Makefile:10 to update target `Box.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Box.o Box.c Successfully remade target file `Box.o'. File `Clock.o' does not exist. Must remake target `Clock.o'. Invoking recipe from Makefile:10 to update target `Clock.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Clock.o Clock.c Clock.c:48:12: warning: conflicting types for built-in function ‘round’ [enabled by default] Successfully remade target file `Clock.o'. File `Command.o' does not exist. Must remake target `Command.o'. Invoking recipe from Makefile:10 to update target `Command.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Command.o Command.c Successfully remade target file `Command.o'. File `color.o' does not exist. Must remake target `color.o'. Invoking recipe from Makefile:10 to update target `color.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o color.o color.c Successfully remade target file `color.o'. File `Container.o' does not exist. Must remake target `Container.o'. Invoking recipe from Makefile:10 to update target `Container.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Container.o Container.c Successfully remade target file `Container.o'. File `Dialog.o' does not exist. Must remake target `Dialog.o'. Invoking recipe from Makefile:10 to update target `Dialog.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Dialog.o Dialog.c Successfully remade target file `Dialog.o'. File `Form.o' does not exist. Must remake target `Form.o'. Invoking recipe from Makefile:10 to update target `Form.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Form.o Form.c Successfully remade target file `Form.o'. File `Frame.o' does not exist. Must remake target `Frame.o'. Invoking recipe from Makefile:10 to update target `Frame.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Frame.o Frame.c Successfully remade target file `Frame.o'. File `Grip.o' does not exist. Must remake target `Grip.o'. Invoking recipe from Makefile:10 to update target `Grip.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Grip.o Grip.c Successfully remade target file `Grip.o'. File `Label.o' does not exist. Must remake target `Label.o'. Invoking recipe from Makefile:10 to update target `Label.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Label.o Label.c Successfully remade target file `Label.o'. File `List.o' does not exist. Must remake target `List.o'. Invoking recipe from Makefile:10 to update target `List.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o List.o List.c Successfully remade target file `List.o'. File `Logo.o' does not exist. Must remake target `Logo.o'. Invoking recipe from Makefile:10 to update target `Logo.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Logo.o Logo.c Successfully remade target file `Logo.o'. File `MenuButton.o' does not exist. Must remake target `MenuButton.o'. Invoking recipe from Makefile:10 to update target `MenuButton.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o MenuButton.o MenuButton.c Successfully remade target file `MenuButton.o'. File `Paned.o' does not exist. Must remake target `Paned.o'. Invoking recipe from Makefile:10 to update target `Paned.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Paned.o Paned.c Successfully remade target file `Paned.o'. File `Panner.o' does not exist. Must remake target `Panner.o'. Invoking recipe from Makefile:10 to update target `Panner.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Panner.o Panner.c Successfully remade target file `Panner.o'. File `Porthole.o' does not exist. Must remake target `Porthole.o'. Invoking recipe from Makefile:10 to update target `Porthole.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Porthole.o Porthole.c Successfully remade target file `Porthole.o'. File `Repeater.o' does not exist. Must remake target `Repeater.o'. Invoking recipe from Makefile:10 to update target `Repeater.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Repeater.o Repeater.c Successfully remade target file `Repeater.o'. File `Scrollbar.o' does not exist. Must remake target `Scrollbar.o'. Invoking recipe from Makefile:10 to update target `Scrollbar.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Scrollbar.o Scrollbar.c Scrollbar.c: In function ‘Release’: Scrollbar.c:1333:5: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `Scrollbar.o'. File `ScrolledTable.o' does not exist. Must remake target `ScrolledTable.o'. Invoking recipe from Makefile:10 to update target `ScrolledTable.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o ScrolledTable.o ScrolledTable.c Successfully remade target file `ScrolledTable.o'. File `Separator.o' does not exist. Must remake target `Separator.o'. Invoking recipe from Makefile:10 to update target `Separator.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Separator.o Separator.c Successfully remade target file `Separator.o'. File `Simple.o' does not exist. Must remake target `Simple.o'. Invoking recipe from Makefile:10 to update target `Simple.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Simple.o Simple.c Successfully remade target file `Simple.o'. File `SimpleMenu.o' does not exist. Must remake target `SimpleMenu.o'. Invoking recipe from Makefile:10 to update target `SimpleMenu.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o SimpleMenu.o SimpleMenu.c Successfully remade target file `SimpleMenu.o'. File `Sme.o' does not exist. Must remake target `Sme.o'. Invoking recipe from Makefile:10 to update target `Sme.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Sme.o Sme.c Successfully remade target file `Sme.o'. File `SmeBSB.o' does not exist. Must remake target `SmeBSB.o'. Invoking recipe from Makefile:10 to update target `SmeBSB.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o SmeBSB.o SmeBSB.c Successfully remade target file `SmeBSB.o'. File `SmeLine.o' does not exist. Must remake target `SmeLine.o'. Invoking recipe from Makefile:10 to update target `SmeLine.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o SmeLine.o SmeLine.c Successfully remade target file `SmeLine.o'. File `StripChart.o' does not exist. Must remake target `StripChart.o'. Invoking recipe from Makefile:10 to update target `StripChart.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o StripChart.o StripChart.c Successfully remade target file `StripChart.o'. File `table.o' does not exist. Must remake target `table.o'. Invoking recipe from Makefile:10 to update target `table.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o table.o table.c Successfully remade target file `table.o'. File `Table2.o' does not exist. Must remake target `Table2.o'. Invoking recipe from Makefile:10 to update target `Table2.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Table2.o Table2.c Successfully remade target file `Table2.o'. File `Text.o' does not exist. Must remake target `Text.o'. Invoking recipe from Makefile:10 to update target `Text.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Text.o Text.c Successfully remade target file `Text.o'. File `TextSink.o' does not exist. Must remake target `TextSink.o'. Invoking recipe from Makefile:10 to update target `TextSink.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o TextSink.o TextSink.c Successfully remade target file `TextSink.o'. File `TextSrc.o' does not exist. Must remake target `TextSrc.o'. Invoking recipe from Makefile:10 to update target `TextSrc.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o TextSrc.o TextSrc.c Successfully remade target file `TextSrc.o'. File `TextAction.o' does not exist. Must remake target `TextAction.o'. Invoking recipe from Makefile:10 to update target `TextAction.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o TextAction.o TextAction.c Successfully remade target file `TextAction.o'. File `TextPop.o' does not exist. Must remake target `TextPop.o'. Invoking recipe from Makefile:10 to update target `TextPop.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o TextPop.o TextPop.c TextPop.c: In function ‘DoSearch’: TextPop.c:794:31: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] TextPop.c: In function ‘Replace’: TextPop.c:924:31: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] Successfully remade target file `TextPop.o'. File `TextTr.o' does not exist. Must remake target `TextTr.o'. Invoking recipe from Makefile:10 to update target `TextTr.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o TextTr.o TextTr.c Successfully remade target file `TextTr.o'. File `Toggle.o' does not exist. Must remake target `Toggle.o'. Invoking recipe from Makefile:10 to update target `Toggle.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Toggle.o Toggle.c Toggle.c: In function ‘Notify’: Toggle.c:422:35: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] Successfully remade target file `Toggle.o'. File `Tree.o' does not exist. Must remake target `Tree.o'. Invoking recipe from Makefile:10 to update target `Tree.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Tree.o Tree.c Successfully remade target file `Tree.o'. File `Vendor.o' does not exist. Must remake target `Vendor.o'. Invoking recipe from Makefile:10 to update target `Vendor.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Vendor.o Vendor.c Successfully remade target file `Vendor.o'. File `Viewport.o' does not exist. Must remake target `Viewport.o'. Invoking recipe from Makefile:10 to update target `Viewport.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o Viewport.o Viewport.c Successfully remade target file `Viewport.o'. File `XawInit.o' does not exist. Must remake target `XawInit.o'. Invoking recipe from Makefile:10 to update target `XawInit.o'. gcc -c -I/usr/X11R6/include -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -o XawInit.o XawInit.c Successfully remade target file `XawInit.o'. Must remake target `libXaw.a'. Invoking recipe from Makefile:13 to update target `libXaw.a'. ar rv libXaw.a 3d.o AllWidgets.o Arrow.o AsciiSink.o AsciiSrc.o AsciiText.o Box.o Clock.o Command.o color.o Container.o Dialog.o Form.o Frame.o Grip.o Label.o List.o Logo.o MenuButton.o Paned.o Panner.o Porthole.o Repeater.o Scrollbar.o ScrolledTable.o Separator.o Simple.o SimpleMenu.o Sme.o SmeBSB.o SmeLine.o StripChart.o table.o Table2.o Text.o TextSink.o TextSrc.o TextAction.o TextPop.o TextTr.o Toggle.o Tree.o Vendor.o Viewport.o XawInit.o ar: creating libXaw.a a - 3d.o a - AllWidgets.o a - Arrow.o a - AsciiSink.o a - AsciiSrc.o a - AsciiText.o a - Box.o a - Clock.o a - Command.o a - color.o a - Container.o a - Dialog.o a - Form.o a - Frame.o a - Grip.o a - Label.o a - List.o a - Logo.o a - MenuButton.o a - Paned.o a - Panner.o a - Porthole.o a - Repeater.o a - Scrollbar.o a - ScrolledTable.o a - Separator.o a - Simple.o a - SimpleMenu.o a - Sme.o a - SmeBSB.o a - SmeLine.o a - StripChart.o a - table.o a - Table2.o a - Text.o a - TextSink.o a - TextSrc.o a - TextAction.o a - TextPop.o a - TextTr.o a - Toggle.o a - Tree.o a - Vendor.o a - Viewport.o a - XawInit.o ranlib libXaw.a Successfully remade target file `libXaw.a'. make[2]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/Xraw' cd src/leap && make install GNU Make 3.82 Built for x86_64-unknown-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Reading makefiles... Updating goal targets.... File `install' does not exist. File `all' does not exist. File `t' does not exist. File `teLeap' does not exist. Must remake target `teLeap'. Invoking recipe from Makefile:183 to update target `teLeap'. make[2]: Entering directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/leap' gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ \ -o teLeap basics.o sysdepend.o stringExtra.o varArray.o getline.o avl.o pdb_format.o pdb_read.o pdb_sprntf.o pdb_sscanf.o pdb_write.o vector.o zMatrix.o sort.o bag.o hash.o dictionary.o database.o nVector.o ring.o matrix.o fortran.o displayer.o assoc.o atom.o byteArray.o collection.o container.o internal.o list.o loop.o molecule.o oDouble.o oInteger.o oString.o objekt.o parmSet.o residue.o unit.o unitio.o tripos.o graphUtil.o select.o amber.o build.o elements.o library.o chirality.o minimizer.o model.o parmLib.o pdbFile.o mol2File.o tools.o variables.o parser.o help.o helptext.o octree.o commands.o mathop.o block.o restraint.o hybrid.o tLeap.o -lm Successfully remade target file `teLeap'. Must remake target `t'. Successfully remade target file `t'. File `X' does not exist. File `xaLeap' does not exist. File `xTank.o' does not exist. Must remake target `xTank.o'. Invoking builtin recipe to update target `xTank.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xTank.o xTank.c Successfully remade target file `xTank.o'. File `xAction.o' does not exist. Must remake target `xAction.o'. Invoking builtin recipe to update target `xAction.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xAction.o xAction.c xAction.c: In function ‘zActionTwistTorsions’: xAction.c:1112:41: warning: passing argument 1 of ‘BuildRotateAroundBondFromTo’ from incompatible pointer type [enabled by default] build.h:68:14: note: expected ‘CONTAINER’ but argument is of type ‘UNIT’ Successfully remade target file `xAction.o'. File `x3d.o' does not exist. Must remake target `x3d.o'. Invoking builtin recipe to update target `x3d.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o x3d.o x3d.c Successfully remade target file `x3d.o'. File `xBasics.o' does not exist. Must remake target `xBasics.o'. Invoking builtin recipe to update target `xBasics.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xBasics.o xBasics.c Successfully remade target file `xBasics.o'. File `xaLeapc.o' does not exist. Must remake target `xaLeapc.o'. Invoking builtin recipe to update target `xaLeapc.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaLeapc.o xaLeapc.c Successfully remade target file `xaLeapc.o'. File `xaUnitEditor.o' does not exist. Must remake target `xaUnitEditor.o'. Invoking builtin recipe to update target `xaUnitEditor.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaUnitEditor.o xaUnitEditor.c xaUnitEditor.c: In function ‘XAUEAddHydrogensAndBuildExternals’: xaUnitEditor.c:888:5: warning: passing argument 1 of ‘BuildInternalsForSimpleRings’ from incompatible pointer type [enabled by default] build.h:75:14: note: expected ‘CONTAINER’ but argument is of type ‘UNIT’ xaUnitEditor.c: In function ‘XAUESelectedAtomsFlipChirality’: xaUnitEditor.c:1335:6: warning: passing argument 1 of ‘bBuildFlipChiralityFor’ from incompatible pointer type [enabled by default] build.h:71:14: note: expected ‘CONTAINER’ but argument is of type ‘UNIT’ Successfully remade target file `xaUnitEditor.o'. File `xaTable.o' does not exist. Must remake target `xaTable.o'. Invoking builtin recipe to update target `xaTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaTable.o xaTable.c Successfully remade target file `xaTable.o'. File `xaAtomTable.o' does not exist. Must remake target `xaAtomTable.o'. Invoking builtin recipe to update target `xaAtomTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaAtomTable.o xaAtomTable.c Successfully remade target file `xaAtomTable.o'. File `XrawRegistr.o' does not exist. Must remake target `XrawRegistr.o'. Invoking builtin recipe to update target `XrawRegistr.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o XrawRegistr.o XrawRegistr.c Successfully remade target file `XrawRegistr.o'. File `xaCommand.o' does not exist. Must remake target `xaCommand.o'. Invoking builtin recipe to update target `xaCommand.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaCommand.o xaCommand.c Successfully remade target file `xaCommand.o'. File `xaTools.o' does not exist. Must remake target `xaTools.o'. Invoking builtin recipe to update target `xaTools.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaTools.o xaTools.c Successfully remade target file `xaTools.o'. File `xaAtomParmTable.o' does not exist. Must remake target `xaAtomParmTable.o'. Invoking builtin recipe to update target `xaAtomParmTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaAtomParmTable.o xaAtomParmTable.c Successfully remade target file `xaAtomParmTable.o'. File `xaBondParmTable.o' does not exist. Must remake target `xaBondParmTable.o'. Invoking builtin recipe to update target `xaBondParmTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaBondParmTable.o xaBondParmTable.c Successfully remade target file `xaBondParmTable.o'. File `xaAngleParmTable.o' does not exist. Must remake target `xaAngleParmTable.o'. Invoking builtin recipe to update target `xaAngleParmTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaAngleParmTable.o xaAngleParmTable.c Successfully remade target file `xaAngleParmTable.o'. File `xaParmEditor.o' does not exist. Must remake target `xaParmEditor.o'. Invoking builtin recipe to update target `xaParmEditor.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaParmEditor.o xaParmEditor.c Successfully remade target file `xaParmEditor.o'. File `xaTorsionParmTable.o' does not exist. Must remake target `xaTorsionParmTable.o'. Invoking builtin recipe to update target `xaTorsionParmTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaTorsionParmTable.o xaTorsionParmTable.c Successfully remade target file `xaTorsionParmTable.o'. File `xaImproperParmTable.o' does not exist. Must remake target `xaImproperParmTable.o'. Invoking builtin recipe to update target `xaImproperParmTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaImproperParmTable.o xaImproperParmTable.c Successfully remade target file `xaImproperParmTable.o'. File `xaHBondParmTable.o' does not exist. Must remake target `xaHBondParmTable.o'. Invoking builtin recipe to update target `xaHBondParmTable.o'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -c -o xaHBondParmTable.o xaHBondParmTable.c Successfully remade target file `xaHBondParmTable.o'. Must remake target `xaLeap'. Invoking recipe from Makefile:187 to update target `xaLeap'. gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ \ -o xaLeap basics.o sysdepend.o stringExtra.o varArray.o getline.o avl.o pdb_format.o pdb_read.o pdb_sprntf.o pdb_sscanf.o pdb_write.o vector.o zMatrix.o sort.o bag.o hash.o dictionary.o database.o nVector.o ring.o matrix.o fortran.o displayer.o assoc.o atom.o byteArray.o collection.o container.o internal.o list.o loop.o molecule.o oDouble.o oInteger.o oString.o objekt.o parmSet.o residue.o unit.o unitio.o tripos.o graphUtil.o select.o amber.o build.o elements.o library.o chirality.o minimizer.o model.o parmLib.o pdbFile.o mol2File.o tools.o variables.o parser.o help.o helptext.o octree.o commands.o mathop.o block.o restraint.o hybrid.o xTank.o xAction.o x3d.o xBasics.o xaLeapc.o xaUnitEditor.o xaTable.o xaAtomTable.o XrawRegistr.o xaCommand.o xaTools.o xaAtomParmTable.o xaBondParmTable.o xaAngleParmTable.o xaParmEditor.o xaTorsionParmTable.o xaImproperParmTable.o xaHBondParmTable.o ../Xraw/libXaw.a ../Wc/libWcLeap.a ../Xpm/libXpm.a ../Xmu/libXmu.a -L/usr/X11R6/lib64 -L/usr/X11R6/lib -lXt -lXext -lSM -lICE -lX11 -lXau -lXdmcp -lm -lpthread ../Xraw/libXaw.a(AsciiSrc.o): In function `InitStringOrFile': AsciiSrc.c:(.text+0x1353): warning: the use of `tmpnam' is dangerous, better use `mkstemp' Successfully remade target file `xaLeap'. File `XaLeap_wcl' does not exist. Must remake target `XaLeap_wcl'. Invoking recipe from Makefile:229 to update target `XaLeap_wcl'. m4 xaLeap.rm4 > XaLeap_wcl Successfully remade target file `XaLeap_wcl'. Must remake target `X'. Successfully remade target file `X'. Must remake target `all'. Successfully remade target file `all'. Must remake target `install'. Invoking recipe from Makefile:168 to update target `install'. mv teLeap xaLeap /usr/local/apps/amber/11-1.5/bin mv XaLeap_wcl /usr/local/apps/amber/11-1.5/dat Successfully remade target file `install'. make[2]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap/src/leap' Copying shell script cp xleap /usr/local/apps/amber/11-1.5/bin/xleap chmod +x /usr/local/apps/amber/11-1.5/bin/xleap Copying pixmaps mkdir /usr/local/apps/amber/11-1.5/dat/pixmap mkdir: cannot create directory `/usr/local/apps/amber/11-1.5/dat/pixmap': File exists make[1]: [install_xleap] Error 1 (ignored) cd pixmap; /bin/cp * /usr/local/apps/amber/11-1.5/dat/pixmap Finished with the install of LEaP Successfully remade target file `install_xleap'. make[1]: Leaving directory `/usr/local/apps/amber/11-1.5/AmberTools/src/leap' Successfully remade target file `install'.