Rchemcpp 2.2.0
Guenter Klambauer
| Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/Rchemcpp | | Last Changed Rev: 88838 / Revision: 95116 | | Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014) |
| zin2 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | OK |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | [ ERROR ] | skipped | skipped |
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###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Rchemcpp
###
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* checking for file ‘Rchemcpp/DESCRIPTION’ ... OK
* preparing ‘Rchemcpp’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to build vignettes
-----------------------------------
* installing *source* package ‘Rchemcpp’ ...
** libs
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o constant.o constant.cpp
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o node.o node.cpp
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o atom.o atom.cpp
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o bond.o bond.cpp
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o cerror.o cerror.cpp
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o chemcpp.o chemcpp.cpp
clang++ -Wall -mtune=core2 -g -O2 -w -fPIC -I../src/ -c -o datacontainer.o datacontainer.cpp
datacontainer.cpp:98:11: error: no viable overloaded '='
for( iti = (aDataContainer).intDescriptors.begin(); iti != (aDataContainer).intDescriptors.end(); iti++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<int> *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:98:58: error: invalid operands to binary expression ('map<const string, Descriptor<int> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( iti = (aDataContainer).intDescriptors.begin(); iti != (aDataContainer).intDescriptors.end(); iti++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:131:11: error: no viable overloaded '='
for( itf = (aDataContainer).floatDescriptors.begin(); itf != (aDataContainer).floatDescriptors.end(); itf++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<float> *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:131:60: error: invalid operands to binary expression ('map<const string, Descriptor<float> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( itf = (aDataContainer).floatDescriptors.begin(); itf != (aDataContainer).floatDescriptors.end(); itf++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:159:11: error: no viable overloaded '='
for( its = aDataContainer.stringDescriptors.begin(); its != aDataContainer.stringDescriptors.end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<class std::__1::basic_string<char> > *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:159:59: error: invalid operands to binary expression ('map<const string, Descriptor<string> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( its = aDataContainer.stringDescriptors.begin(); its != aDataContainer.stringDescriptors.end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:348:11: error: no viable overloaded '='
for( its = stringDescriptors.begin(); its != (stringDescriptors).end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<class std::__1::basic_string<char> > *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:348:44: error: invalid operands to binary expression ('map<const string, Descriptor<string> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( its = stringDescriptors.begin(); its != (stringDescriptors).end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:352:11: error: no viable overloaded '='
for( iti = intDescriptors.begin(); iti != (intDescriptors).end(); iti++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<int> *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:352:41: error: invalid operands to binary expression ('map<const string, Descriptor<int> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( iti = intDescriptors.begin(); iti != (intDescriptors).end(); iti++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:356:12: error: no viable overloaded '='
for( itf = floatDescriptors.begin(); itf != (floatDescriptors).end(); itf++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<float> *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:356:44: error: invalid operands to binary expression ('map<const string, Descriptor<float> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( itf = floatDescriptors.begin(); itf != (floatDescriptors).end(); itf++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:371:11: error: no viable overloaded '='
for( its = (*kindStringDescriptors).begin(); its != (*kindStringDescriptors).end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<class std::__1::basic_string<char> > *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:371:51: error: invalid operands to binary expression ('map<const string, Descriptor<string> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( its = (*kindStringDescriptors).begin(); its != (*kindStringDescriptors).end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:378:11: error: no viable overloaded '='
for( iti = (*kindIntDescriptors).begin(); iti != (*kindIntDescriptors).end(); iti++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<int> *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:378:48: error: invalid operands to binary expression ('map<const string, Descriptor<int> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( iti = (*kindIntDescriptors).begin(); iti != (*kindIntDescriptors).end(); iti++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:384:12: error: no viable overloaded '='
for( itf = (*kindFloatDescriptors).begin(); itf != (*kindFloatDescriptors).end(); itf++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<float> *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
datacontainer.cpp:384:51: error: invalid operands to binary expression ('map<const string, Descriptor<float> *>::iterator' (aka '__map_iterator<typename __base::iterator>') and 'iterator' (aka '__map_iterator<typename __base::iterator>'))
for( itf = (*kindFloatDescriptors).begin(); itf != (*kindFloatDescriptors).end(); itf++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
datacontainer.cpp:390:11: error: no viable overloaded '='
for( its = stringDescriptors.begin(); its != (stringDescriptors).end(); its++ ){
˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/map:648:29: note: candidate function (the implicit copy assignment operator) not viable: no known conversion from '__map_iterator<__tree_iterator<__value_type<basic_string<[3 * ...]>, [...]>, __node_pointer, [...]>>' to 'const __map_iterator<__tree_iterator<__value_type<const basic_string<[3 * ...]>, [...]>, class std::__1::__tree_node<struct std::__1::__value_type<const class std::__1::basic_string<char>, class Descriptor<class std::__1::basic_string<char> > *>, void *> *, [...]>>' for 1st argument
class _LIBCPP_TYPE_VIS_ONLY __map_iterator
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
make[1]: *** [datacontainer.o] Error 1
make: *** [sublib] Error 1
ERROR: compilation failed for package ‘Rchemcpp’
* removing ‘/private/tmp/RtmpN9kDty/Rinst929d3cffdeac/Rchemcpp’
-----------------------------------
ERROR: package installation failed