redirect output for FilteredKmersCache

[James Doonan]

I installed kSNP4 on an external server. When the program runs it places cached output in my home directory which fills up fast. I have a large space allowance on another directory (data_dir). Is there an easy way to redirect the FilteredKmersCache to data_dir? I don't have sudo rights.

This is the error:

DEBUG:Cached filtered kmers from kmers.fsplit0 to /home/kSNP/FilteredKmersCache/f9a0efc6f8d763224331f8087822612a86bd118219e4e5f8c001320bc2265537.17.
DEBUG:Cached filtered kmers from kmers.fsplit1 to /home/kSNP/FilteredKmersCache/63a5589a4b6048187c79c26740ee036d2e2b86db4085072b49555020d19be6fb.17.
DEBUG:Cached filtered kmers from kmers.fsplit2 to /home/kSNP/FilteredKmersCache/52c9ce63efc5b9fb5016d6eaf9f6b109a5458a15533bbeae735ceb57a28285a5.17.
Traceback (most recent call last):
File "get_filtered_kmers.py", line 406, in <module>
File "get_filtered_kmers.py", line 330, in cacheFilteredKmers
File "shutil.py", line 418, in copy
File "shutil.py", line 264, in copyfile
OSError: [Errno 28] No space left on device: '/home/kSNP/FilteredKmersCache/52c9ce63efc5b9fb5016d6eaf9f6b109a5458a15533bbeae735ceb57a28285a5.17'
[14629] Failed to execute script 'get_filtered_kmers' due to unhandled exception!
0 GCA_009662435 /data_dir/GCA_009662435.1
1 GCA_009665145 /data_dir/GCA_009665145.2</module>

Thanks,

James

[Barry G. Hall]

No I dea. I have no experience with external servers
Barry G. Hall
barryghall@gmail.com



On Sep 6, 2024, at 12:49 AM, James Doonan jamdoo@users.sourceforge.net wrote:

I installed kSNP4 on an external server. When the program runs it places cached output in my home directory which fills up fast. I have a large space allowance on another directory (data_dir). Is there an easy way to redirect the FilteredKmersCache to data_dir? I don't have sudo rights.

This is the error:

DEBUG:Cached filtered kmers from kmers.fsplit0 to /home/kSNP/FilteredKmersCache/f9a0efc6f8d763224331f8087822612a86bd118219e4e5f8c001320bc2265537.17.
DEBUG:Cached filtered kmers from kmers.fsplit1 to /home/kSNP/FilteredKmersCache/63a5589a4b6048187c79c26740ee036d2e2b86db4085072b49555020d19be6fb.17.
DEBUG:Cached filtered kmers from kmers.fsplit2 to /home/kSNP/FilteredKmersCache/52c9ce63efc5b9fb5016d6eaf9f6b109a5458a15533bbeae735ceb57a28285a5.17.
Traceback (most recent call last):
File "get_filtered_kmers.py", line 406, in <module>
File "get_filtered_kmers.py", line 330, in cacheFilteredKmers
File "shutil.py", line 418, in copy
File "shutil.py", line 264, in copyfile
OSError: [Errno 28] No space left on device: '/home/kSNP/FilteredKmersCache/52c9ce63efc5b9fb5016d6eaf9f6b109a5458a15533bbeae735ceb57a28285a5.17'
[14629] Failed to execute script 'get_filtered_kmers' due to unhandled exception!
0 GCA_009662435 /data_dir/GCA_009662435.1
1 GCA_009665145 /data_dir/GCA_009665145.2</module>

Thanks,

James
redirect output for FilteredKmersCache https://sourceforge.net/p/ksnp/discussion/general/thread/b83293e0af/?limit=25#fcef
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