I could not download files from GIT LFS

[GlimmerR]

I'm a student and when I cloned the repository some errors occured as follows

[12d19745f73a6d7cab15890a3cbcd3f70f2ad268f7ca201879532b0677f9cfa2] Object does not exist on the server: [404] Object does not exist on the server
[e0a3f2014964954309a59cfe998723256b540cd9328338ce14b8fdd2135624df] Object does not exist on the server: [404] Object does not exist on the server
[b6cab1d93f08394f25d5a9479da3d1007133a21682a120f1823d39641b5891aa] Object does not exist on the server: [404] Object does not exist on the server
[d8285bfe4bf5c90da7b7ba2c405118ed04653f80aaeba278affc0767f29881b0] Object does not exist on the server: [404] Object does not exist on the server
[177031fb6fd9f95b0a0cac78c0c5579a55f37d652c4bf193bd7601d0d4551e22] Object does not exist on the server: [404] Object does not exist on the server
[890911d5dd9fa16f61d7c78db99cfe59a33f4b40cda23e4e4b22bc241ce96c17] Object does not exist on the server: [404] Object does not exist on the server
[39f67bf7044c78b7884aafe40df15ce515adc9302772f3cd927767f9efe3b5b9] Object does not exist on the server: [404] Object does not exist on the server
error: failed to fetch some objects from 'https://github.com/fhalab/channels.git/info/lfs'

I don't know how to handle these errors
could you help me solve this problem?
Thank you!

[yangkky]

Does the clone finish?

[GlimmerR]

I think it finished. I have retried it several times but they returned the same errors.
These are all command line prompts.

$ git lfs clone [email protected]:fhalab/channels.git
WARNING: 'git lfs clone' is deprecated and will not be updated
with new flags from 'git clone'
'git clone' has been updated in upstream Git to have comparable
speeds to 'git lfs clone'.
Cloning into 'channels'...
remote: Enumerating objects: 238, done.
remote: Total 238 (delta 0), reused 0 (delta 0), pack-reused 238
Receiving objects: 100% (238/238), 9.60 MiB | 265.00 KiB/s, done.
Resolving deltas: 100% (129/129), done.
[12d19745f73a6d7cab15890a3cbcd3f70f2ad268f7ca201879532b0677f9cfa2] Object does not exist on the server: [404] Object does not exist on the server
[e0a3f2014964954309a59cfe998723256b540cd9328338ce14b8fdd2135624df] Object does not exist on the server: [404] Object does not exist on the server
[b6cab1d93f08394f25d5a9479da3d1007133a21682a120f1823d39641b5891aa] Object does not exist on the server: [404] Object does not exist on the server
[d8285bfe4bf5c90da7b7ba2c405118ed04653f80aaeba278affc0767f29881b0] Object does not exist on the server: [404] Object does not exist on the server
[177031fb6fd9f95b0a0cac78c0c5579a55f37d652c4bf193bd7601d0d4551e22] Object does not exist on the server: [404] Object does not exist on the server
[890911d5dd9fa16f61d7c78db99cfe59a33f4b40cda23e4e4b22bc241ce96c17] Object does not exist on the server: [404] Object does not exist on the server
[39f67bf7044c78b7884aafe40df15ce515adc9302772f3cd927767f9efe3b5b9] Object does not exist on the server: [404] Object does not exist on the server
error: failed to fetch some objects from 'https://github.com/fhalab/channels.git/info/lfs'

[GlimmerR]

I can download “channels/classification/outputs/2GFP_above_parent.pkl“ and “matern52_bin0.1_max_peak_False.pkl“ correctly.So I think those files can't be downloaded may be invalild
Could you re-upload those files?
And it would be nice to add more comments in your classification code.
Thank you!

[mengqvist]

I second that the comment from GlimmerR. When I try to clone the repository some files from the lfs do not download. I get the identical error message that he does.

Specifically I'm interested in obtaining the input files to replicate your results.

[yangkky]

Can you specify which files are missing, I'll try to fix them?

[mengqvist]

Much appreciated! I hope it will not be too difficult to recover these.

Six out of seven files are missing in '/channels/classification/inputs/'. These are:
2GFP_above_parent123457.pkl
GFP_data.pkl
gfp_props.pkl
lit_alignment_and_contacts.pkl
props.pkl
X_and_terms.pkl

Finally, in '/channels/regression/inputs/' the file lit_alignment_and_contacts_pro2.pkl is missing.

[mohsaied]

was this ever resolved? Can you upload the files in some other way? gdrive link or something?

[mohsaied]

Downloading classification/inputs/2GFP_above_parent123457.pkl (1.2 GB) Error downloading object: classification/inputs/2GFP_above_parent123457.pkl (12d1974): Smudge error: Error downloading classification/inputs/2GFP_above_parent123457.pkl (12d19745f73a6d7cab15890a3cbcd3f70f2ad268f7ca201879532b0677f9cfa2): [12d19745f73a6d7cab15890a3cbcd3f70f2ad268f7ca201879532b0677f9cfa2] Object does not exist on the server: [404] Object does not exist on the server

[mohsaied]

it seems the file is not there?

[yangkky]

I've uploaded all the classification inputs to google drive. See if that works for you.

Ideally, I'd go through and fix the underlying git lfs issues, but this should be a good stopgap.

[mohsaied]

sorry but it seems I need the other files too.. input/output in both classification and regression. Can you add them to the link pls?

[yangkky]

Thanks for your patience.

Classification outputs
Regression inputs
Regression outputs

[mitchelldaneker]

I am unable to access the google drive files. It says they do not exist. Were they removed?