On 9/6/21 8:29 PM, Andreas Tille wrote:
> Gilles, do you see any chance to bump the minor version of hdf5 which
> should be hopefully easier than just upgrade to the latest upstream
> (1.12.0). This would help us a lot.
+1
Little more information: rhdf5 is not compatible with 1.12 of hdf5 (currently in experimental)
Build ends with:
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -I'/usr/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-kpovBh/r-base-4.1.1=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5constants.c -o H5constants.o
H5constants.c: In function ‘_H5constants’:
H5constants.c:183:8: error: ‘H5I_REFERENCE’ undeclared (first use in this function); did you mean ‘H5T_REFERENCE’?
183 | H5I_REFERENCE, H5I_VFL, H5I_GENPROP_CLS, H5I_GENPROP_LST,
| ^~~~~~~~~~~~~
| H5T_REFERENCE
H5constants.c:183:8: note: each undeclared identifier is reported only once for each function it appears in
make[2]: *** [/usr/lib/R/etc/Makeconf:168: H5constants.o] Error 1
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Entering directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
ERROR: compilation failed for package ‘rhdf5’
So, 1.10.7 would be best
>> [1]: https://salsa.debian.org/r-pkg-team/r-bioc-rhdf5/-/blob/master/inst/NEWS.Rd#L8-9
>> [2]: https://www.hdfgroup.org/2020/09/release-of-hdf5-1-10-7-newsletter-175/
Nilesh
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