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aertslab / SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
http://scenic.aertslab.org
GNU General Public License v3.0
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Why don't the loom file be opened #145

Open ClaireZQ opened 4 years ago

ClaireZQ commented 4 years ago

loom=open_loom(loomPath, mode='r') Error in H5File.open(filename, mode, file_create_pl, file_access_pl) : HDF5-API Errors: error #000: ../../src/hdf5-1.10.0-1/src/H5F.c in H5Fopen(): line 579: unable to open file class: HDF5 major: File accessibilty minor: Unable to open file

error #001: ../../src/hdf5-1.10.0-1/src/H5Fint.c in H5F_open(): line 1208: unable to read superblock
    class: HDF5
    major: File accessibilty
    minor: Read failed

error #002: ../../src/hdf5-1.10.0-1/src/H5Fsuper.c in H5F__super_read(): line 443: truncated file: eof = 26403075, sblock->base_addr = 0, stored_eof = 26409219
    class: HDF5
    major: File accessibilty
    minor: File has been truncated
chuiqin commented 4 years ago

Hi,I have the same problem.

xulahong commented 4 years ago

Hi, I also have such problem.

Momomocheng commented 3 years ago

+1

dongwei1220 commented 3 years ago

Hi, I also have the same problem.

Yunuuuu commented 1 month ago

Here is the full codes:

file <- system.file("extdata", "example.loom", package = "SCopeLoomR")
loom <- SCopeLoomR::open_loom(file, "r+")