Mouse-Imaging-Centre
provide better feedback on corrupt MINC files
When MINC files get corrupted, you can see error messages like this when loading them:
DF5-DIAG: Error detected in HDF5 (1.8.10-patch1) thread 0: #000: H5Dio.c line 174 in H5Dread(): can't read data major: Dataset minor: Read failed #001: H5Dio.c line 449 in H5D__read(): can't read data major: Dataset minor: Read failed #002: H5Dchunk.c line 1735 in H5D__chunk_read(): unable to read raw data chunk major: Low-level I/O minor: Read failed #003: H5Dchunk.c line 2766 in H5D__chunk_lock(): data pipeline read failed major: Data filters minor: Filter operation failed #004: H5Z.c line 1120 in H5Z_pipeline(): filter returned failure during read major: Data filters minor: Read failed #005: H5Zdeflate.c line 125 in H5Z_filter_deflate(): inflate() failed major: Data filters minor: Unable to initialize object /projects/mice/share/arch/linux-3_2_0-36-generic-x86_64-eglibc-2_15/src/minc-toolkit/libminc/libsrc2/hyper.c:794 (from MINC2): HDF5 function H5Dread failed Error in mincGetVolume(testfiles$filename[i]) : Could not get hyperslab.
Currently the RMINC functions (mincLm for instance) will die on this without indicating which file from your list of input files was the culprit.
Hey Matthijs, can you give me an example that breaks, I'll look in to fixing this
Next time I run into a corrupted file, I'll save it for you! (The ones in question have been fixed)