Import Movie job error

Import and Export
1

Following the tutorial, I have downloaded the test files and tried to import the movies and gain reference into workspace. While movies can be import properly, the gain reference .mrc cannot be loaded with the following message.

Traceback (most recent call last):
File “cryosparc2_master/cryosparc2_compute/run.py”, line 78, in cryosparc2_compute.run.main
File “cryosparc2_compute/jobs/imports/run.py”, line 510, in run_import_movies_or_micrographs
with open(gainref_abs_path) as mrc_file:
IOError: [Errno 2] No such file or directory: u’$HOME/Desktop/WORK/CryoSPARC/empiar_10025_subset/norm-amibox05-0.mrc’

I am sure the .mrc file is in that folder. How can I solve this problem?

1 Like
2

I’m having the same issue. Here is a screenshot of my job:

ioerror.png1264×629 111 KB

and a directory listing from the node that is running the server (though the files are on a shared filesystem):

[be59@c16n09 empiar_10025_subset ]$ pwd
/home/be59/project/software/cryosparc2/cryo_working/empiar_10025_subset
[be59@c16n09 empiar_10025_subset ]$ ls -la
total 8482432
drwxr-xr-x 2 be59 lsprog      4096 Feb 17  2018 .
drwxr-xr-x 4 be59 lsprog      4096 Oct  9 14:51 ..
-rw-r--r-- 1 be59 lsprog 422733794 Feb 16  2018 14sep05c_00024sq_00003hl_00002es.frames.tif
-rw-r--r-- 1 be59 lsprog 420154432 Feb 16  2018 14sep05c_00024sq_00003hl_00005es.frames.tif
-rw-r--r-- 1 be59 lsprog 421919576 Feb 16  2018 14sep05c_00024sq_00004hl_00002es.frames.tif
-rw-r--r-- 1 be59 lsprog 421367080 Feb 16  2018 14sep05c_00024sq_00006hl_00003es.frames.tif
-rw-r--r-- 1 be59 lsprog 423353828 Feb 16  2018 14sep05c_c_00003gr_00014sq_00002hl_00005es.frames.tif
-rw-r--r-- 1 be59 lsprog 421554350 Feb 16  2018 14sep05c_c_00003gr_00014sq_00004hl_00004es.frames.tif
-rw-r--r-- 1 be59 lsprog 422982374 Feb 16  2018 14sep05c_c_00003gr_00014sq_00005hl_00002es.frames.tif
-rw-r--r-- 1 be59 lsprog 423048716 Feb 16  2018 14sep05c_c_00003gr_00014sq_00005hl_00003es.frames.tif
-rw-r--r-- 1 be59 lsprog 423479912 Feb 16  2018 14sep05c_c_00003gr_00014sq_00005hl_00005es.frames.tif
-rw-r--r-- 1 be59 lsprog 422983364 Feb 16  2018 14sep05c_c_00003gr_00014sq_00006hl_00002es.frames.tif
-rw-r--r-- 1 be59 lsprog 422354648 Feb 16  2018 14sep05c_c_00003gr_00014sq_00006hl_00003es.frames.tif
-rw-r--r-- 1 be59 lsprog 423474632 Feb 16  2018 14sep05c_c_00003gr_00014sq_00006hl_00005es.frames.tif
-rw-r--r-- 1 be59 lsprog 421874592 Feb 16  2018 14sep05c_c_00003gr_00014sq_00007hl_00004es.frames.tif
-rw-r--r-- 1 be59 lsprog 423850440 Feb 16  2018 14sep05c_c_00003gr_00014sq_00007hl_00005es.frames.tif
-rw-r--r-- 1 be59 lsprog 422648462 Feb 16  2018 14sep05c_c_00003gr_00014sq_00008hl_00005es.frames.tif
-rw-r--r-- 1 be59 lsprog 424085746 Feb 16  2018 14sep05c_c_00003gr_00014sq_00009hl_00004es.frames.tif
-rw-r--r-- 1 be59 lsprog 423424120 Feb 16  2018 14sep05c_c_00003gr_00014sq_00010hl_00002es.frames.tif
-rw-r--r-- 1 be59 lsprog 424013764 Feb 16  2018 14sep05c_c_00003gr_00014sq_00011hl_00002es.frames.tif
-rw-r--r-- 1 be59 lsprog 423497588 Feb 16  2018 14sep05c_c_00003gr_00014sq_00011hl_00003es.frames.tif
-rw-r--r-- 1 be59 lsprog 424049204 Feb 16  2018 14sep05c_c_00003gr_00014sq_00011hl_00004es.frames.tif
-rw-r--r-- 1 be59 lsprog        99 Feb 17  2018 info.txt
-rw-r--r-- 1 be59 lsprog 227824704 Feb 17  2018 norm-amibox05-0.mrc
3

modify your input routine as
/HOME/Desktop/WORK/CryoSPARC/empiar_10025_subset/norm-amibox05-0.mrc
it may be work