96187 2005-06-15 08:45 0000 sci-libs/netcdf dependency for sci-libs/hdf causes conflict 2005-10-01 14:32:25 0000 1 1 1 Unclassified Gentoo Linux Library unspecified All Linux RESOLVED FIXED P2 normal --- 1 princely@emirates.net.ae sci@gentoo.org ribosome@gentoo.org princely@emirates.net.ae 2005-06-15 08:45:49 0000 The sci-libs/hdf library defines functions found in sci-libs/netcdf library causing linking conflicts. netcdf library is not required to compile hdf (mfhdf includes headers,etc. that it needs). Therefore netcdf should not be required by HDF. Also this is not easy to catch because it compiles fine and only causes problems at runtime when the wrong function gets linked / called. This causes problems with other applications and libraries higher up, such as GDAL. Reproducible: Always Steps to Reproduce: 1. 2. 3. markusle@gentoo.org 2005-09-21 19:37:18 0000 Created an attachment (id=68982) trivial patch to remove netcdf dependency The netcdf dependencies are indeed not required by hdf. Unfortunately, I don't quite understand what you mean by "the sci-libs/hdf library defines functions found in sci-libs/netcdf library causing linking conflicts". Do you mean that the hdf binaries link to netcdf libaries when they shouldn't? They don't on my system. Also, I don't seen any conflict in installed library names between hdf and netcdf and hence don't see any linking conflict either. Could you please clarify. Thanks! princely@emirates.net.ae 2005-09-22 04:10:09 0000 I have problems with non-portage applications that support both, their configure scripts detect both libraries and attempt to use them together (libmfhdf.so and libnetcdf.a). These libraries export the same netcdf functions causing linking errors (using netcdf functions from libmfhdf.so instead of libnetcdf.a). But this is unexpected - since I didn't specify 'netcdf' in my USE flags I don't expect it to be present on my system. markusle@gentoo.org 2005-09-22 12:43:24 0000 If you can assure that no other portage package on your system pulls in netcdf (scientific python comes to mind) the removal of netcdf as dependency of hdf should solve your problem. In the long run, however, you might consider fixing the configure/makefiles of you non-portage application to link to the proper library; e.g. via presence/absence of -lnetcdf or linking in /path/to/libmfhdf.so. ribosome@gentoo.org 2005-10-01 14:32:25 0000 I removed the dependency. This should solve your problem if you do not need netcdf on your system. Otherwise, as Markus said, you will have to patch other programs to link to the correct library. 68982 2005-09-21 19:37 0000 trivial patch to remove netcdf dependency hdf-remove-netcdf.patch text/plain LS0tIC91c3IvcG9ydGFnZS9zY2ktbGlicy9oZGYvaGRmLTQuMi4wLXIzLmVidWlsZAkyMDA1LTAx LTI1IDIyOjA4OjQ2LjAwMDAwMDAwMCArMDAwMAorKysgL3Vzci9sb2NhbC9wb3J0YWdlL3NjaS1s aWJzL2hkZi9oZGYtNC4yLjAtcjMuZWJ1aWxkCTIwMDUtMDktMjIgMDE6NDQ6MTIuMDAwMDAwMDAw ICswMDAwCkBAIC0yMiw3ICsyMiw2IEBACiAKIERFUEVORD0ic3lzLWxpYnMvemxpYgogCQltZWRp YS1saWJzL2pwZWcKLQkJc2NpLWxpYnMvbmV0Y2RmCiAJCT49c3lzLWFwcHMvc2VkLTQKIAkJc3pp cD8gKCBzY2ktbGlicy9zemlwICkiCiAK