conda-forge / r-seuratdisk-feedstock

A conda-smithy repository for r-seuratdisk.
BSD 3-Clause "New" or "Revised" License
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Convert(source="tumor_filter.h5Seurat", dest = "h5ad") #1

Open hzongyao opened 3 years ago

hzongyao commented 3 years ago

Issue: Convert(source="tumor_filter.h5Seurat", dest = "h5ad") Validating h5Seurat file Adding data from loom as X Adding counts from loom as raw Transfering meta.data to obs Adding dimensional reduction information for tsne (global) Adding dimensional reduction information for umap (global) Adding data from SCT as a layer Adding data from Spatial as a layer Error in layers$obj_copy_from(src_loc = source[["assays"]][[other]], src_name = layer.slot, : HDF5-API Errors: error #000: ../../../src/H5Ocopy.c in H5Ocopy(): line 275: unable to copy object class: HDF5 major: Object header minor: Unable to copy object

error #001: ../../../src/H5Ocopy.c in H5O_copy_obj(): line 1194: unable to copy object
    class: HDF5
    major: Object header
    minor: Unable to copy object

error #002: ../../../src/H5Ocopy.c in H5O_copy_header(): line 1138: unable to copy object
    class: HDF5
    major: Object header
    minor: Unable to copy object

error #003: ../../../src/H5Ocopy.c in H5O_copy_header_real(): line 854: unable to perform 'post copy' operation on message
    class: HDF5
    major: Object header
    minor: Unable to initialize object

error #004: ../../../src/H5Ostab.c in H5O_stab_post_copy_file(): line 406: iteration operator failed
    class: HDF5
    major: Symbol table
    minor: Unable to initialize object

error #005: ../../../


Environment (conda list):

R4.03 ``` $ conda list python 3.7 ```

11
Details about conda and system ( conda info ):

linux ``` $ conda info anaconda ```
Arsenalwins commented 2 months ago

hello!I wonder whether you get the solution to your problem? I am faced with same situation