Package: rhdf5

Version: 1.7.0

Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD build rhdf5

RetCode: 1

Time: 4.5 seconds

Status: ERROR

PackageFile: None

* checking for file 'rhdf5/DESCRIPTION' ... OK
* preparing 'rhdf5':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* checking whether 'INDEX' is up-to-date ... NO
* use '--force' to overwrite the existing 'INDEX'
* installing the package to re-build vignettes
installing R.css in D:/biocbld/bbs-2.1-bioc/tmpdir/Rinst430873437


---------- Making package rhdf5 ------------

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************

  adding build stamp to DESCRIPTION
  making DLL ...
making hdf5.d from hdf5.c
making hdf_attribs.d from hdf_attribs.c
making hdf_convert.d from hdf_convert.c
making hdf_dataset.d from hdf_dataset.c
making hdf_dataspace.d from hdf_dataspace.c
making hdf_datatype.d from hdf_datatype.c
making hdf_files.d from hdf_files.c
making hdf_group.d from hdf_group.c
making hdf_group_apply.d from hdf_group_apply.c
making hdf_initializer.d from hdf_initializer.c
making hdf_io.d from hdf_io.c
making hdf_plist.d from hdf_plist.c
making hdf_register.d from hdf_register.c
making hdf_subassign.d from hdf_subassign.c
making hdf_util.d from hdf_util.c
gcc  -IC:/hdf/5-142p1-win/include -D_HDF5USEDLL_ -Id:/biocbld/bbs-2.1-bioc/R/include  -Wall -O3 -std=gnu99   -c hdf5.c -o hdf5.o
In file included from hdf5.c:1:
common.h:7:18: hdf5.h: No such file or directory
In file included from hdf5.c:1:
common.h:46: error: syntax error before "const"
common.h:46: error: syntax error before ')' token
common.h:47: error: syntax error before "hsize_t"
common.h:132: error: syntax error before "HDF_fileopen"
common.h:132: error: syntax error before "hid_t"
common.h:132: warning: type defaults to `int' in declaration of `HDF_fileopen'
common.h:132: warning: data definition has no type or storage class
common.h:133: error: syntax error before "HDF_groupmkgroup"
common.h:133: error: syntax error before "char"
common.h:133: warning: type defaults to `int' in declaration of `HDF_groupmkgroup'
common.h:133: warning: data definition has no type or storage class
common.h:134: error: syntax error before "double2int"
common.h:134: error: syntax error before '*' token
common.h:135: warning: type defaults to `int' in declaration of `double2int'
common.h:135: warning: data definition has no type or storage class
common.h:137: error: syntax error before "HDF_copydataset"
common.h:137: warning: type defaults to `int' in declaration of `HDF_copydataset'
common.h:137: warning: parameter names (without types) in function declaration
common.h:137: warning: data definition has no type or storage class
common.h:139: warning: parameter names (without types) in function declaration
common.h:140: error: syntax error before "int"
common.h:142: warning: parameter names (without types) in function declaration
common.h:143: error: syntax error before "Rtype2HDFtype"
common.h:143: warning: type defaults to `int' in declaration of `Rtype2HDFtype'
common.h:143: warning: data definition has no type or storage class
hdf5.c: In function `HDF_init':
hdf5.c:23: error: `hid_t' undeclared (first use in this function)
hdf5.c:23: error: (Each undeclared identifier is reported only once
hdf5.c:23: error: for each function it appears in.)
hdf5.c:23: error: syntax error before "file"
hdf5.c:39: error: `file' undeclared (first use in this function)
hdf5.c:39: error: `H5P_DEFAULT' undeclared (first use in this function)
hdf5.c:40: warning: implicit declaration of function `H5sexp'
hdf5.c:40: warning: assignment makes pointer from integer without a cast
hdf5.c:55: error: `group' undeclared (first use in this function)
hdf5.c:56: warning: assignment makes pointer from integer without a cast
hdf5.c: In function `HDF_is_valid':
hdf5.c:68: error: `hid_t' undeclared (first use in this function)
hdf5.c:68: error: syntax error before "R_ExternalPtrAddr"
make[3]: *** [hdf5.o] Error 1
make[2]: *** [srcDynlib] Error 2
make[1]: *** [all] Error 2
make: *** [pkg-rhdf5] Error 2
*** Installation of rhdf5 failed ***

Removing 'D:/biocbld/bbs-2.1-bioc/tmpdir/Rinst430873437/rhdf5'
 ERROR
Installation failed.
Removing 'D:/biocbld/bbs-2.1-bioc/tmpdir/Rinst430873437'