- Fallback issues
issue opened on Mar 22 2024 by Pjotr Prins, last updated on Apr 05 2024 by Pjotr Prins; 3 of 6 tasks done
...287 Apr 2 07:03 75.png
-rw-r--r-- 1 gunicorn-genenetwork2 gunicorn-genenetwork2 303 Apr 2 07:03 25.png
-rw-r--r-- 1 gunicorn-genenetwork2 gunicorn-genenetwork2 348 Apr 2 07:03 125.png
-rw-r--r-- 1...
- GN Markdown Editor Integration
issue opened on Jun 07 2024 by Alexander_Kabui, last updated on Aug 22 2024 by Alexander_Kabui; 9 of 10 tasks done
...```bash
curl -G -d "file_path=test.md" localhost:8091/edit
```
In case of a successful response, the expected result is:
```json
{
"path": "<file_path>",
"content": "Test for new user\n test 2...
- GN2 Time Machines
issue opened on Aug 19 2022 by Pjotr Prins, last updated on Sep 05 2022 by Alexander_Kabui; 4 of 10 tasks done
...(est. 4-8 hours)
* [X] Sync backups on a daily basis and add monitoring (2 hours)
* [X] Set up Mariadb and sync from backup (4 hours)
* [X] GN2 production environment with nginx & genotype_files (2...
- rewrite sampledata fetching with genofiles using scheme
issue opened on Jul 19 2023 by Alexander_Kabui, last updated on Jul 26 2023 by Alexander_Kabui; 2 of 6 tasks done
.../data-vault-2
### TODOS
* [x] reading the genofile
* [x] parsing the genofile to obtain the sample names,metadata
* [] adding unit tests for the module
* [] query statements fetch sampledata...
- Global search does not close connections properly (and is slow)
✓ issue opened on Mar 23 2022 by Frederick Muriuki Muriithi, last updated on Oct 14 2022 by Arun Isaac
...mean
```
2020-08-15 2:53:58 140273206434560 [Warning] Aborted connection 45219 to db: 'db_webqtl' user: 'webqtlout' host: '127.0.0.1' (CLOSE_CONNECTION)
```
generating 6Mb of log file info.
In fact...
- correlation error: 'NoneType' object is not iterable
✓ issue opened on Mar 23 2022 by Frederick Muriuki Muriithi, last updated on Apr 13 2022 by Alexander Kabui
...2:39PM UTC Feb 19, 2020)
'NoneType' object is not iterable (error)
File "/export/local/home/gn2/production/gene/wqflask/wqflask/correlation/show_corr_results.py", line 473, in process_samples...
- GN1 annotation page broken
issue opened on Mar 23 2022 by Frederick Muriuki Muriithi, last updated on Dec 17 2022 by Pjotr Prins; 0 of 2 tasks done
.../28823252/installing-php-5-3-29-from-sources-on-ubuntu-14-with-apache-2-module
=> https://www.bobulous.org.uk/coding/apache-php-cgi.html
## Test instance of GN1
I started a test instance that listens...
- Penguin2 RAID 5
issue opened on Feb 28 2025 by Pjotr Prins
.../sdd1 393G 121G 252G 33% /
# swap
/dev/sdd5 partition 976M 76.5M -2
```
We can therefore add four new disks in slots /dev/sdc,sde,sdf,sdh
penguin2 has no out-of-band and no serial connector...
- Adding principal component to collection returns an error
issue opened on Mar 23 2022 by Frederick Muriuki Muriithi, last updated on Apr 07 2022 by Alexander Kabui
.../collect.py", line 194, in view_collection
name, dataset_name = atrait.split(':')
ValueError: not enough values to unpack (expected 2, got 1)
```
### To Reproduce
* Add transcript...
- GN1 github problem
issue opened on Dec 17 2022 by Pjotr Prins
...up to 128 threads
Compressing objects: 100% (21/21), done.
Writing objects: 100% (23/23), 118.03 MiB | 23.15 MiB/s, done.
Total 23 (delta 20), reused 3 (delta 2)
remote: Resolving deltas: 100% (20/20)...
- Wrong CSV in ITP_10001 longevity dataset
✓ issue opened on Apr 11 2022 by BonfaceKilz, last updated on Apr 12 2022 by BonfaceKilz
...1,2004
JL00007,790.000000,x,x,790,4/22/04,,4OHPBN_J,Jun,,0^M,M,JL,1,2004
JL00032,916.000000,x,x,916,4/21/04,2017.06,Cont_04_J,Oct,M,2^M,M,JL,0,2004
JL00033,1099.000000,x,x,1099,4/21/04,,Cont_04_J,Apr...
- Fix GN1 Network Graph
issue opened on Sep 15 2021 by Pjotr Prins, last updated on Mar 14 2022 by Frederick Muriuki Muriithi
...GraphViz</a> visualization toolkit from <a href="http://www.research.att.com" class="normalsize" target="_blank">AT&T Research</a>.</p>''' % (round(totalTime, 2))
```
So it uses graphviz...
- CD is slow
issue opened 12 days ago by Pjotr Prins, last updated 8 days ago by Pjotr Prins; 2 of 8 tasks done
.../bin/nsenter -m -p -t $(pgrep -P `ps xau|grep genenetwork-development-container|awk '{print $2}'|sort -r|head -1`) /run/current-system/profile/bin/bash -login
```
Once inside we can pick up curl (I...