vidjil issueshttps://gitlab.inria.fr/vidjil/vidjil/-/issues2021-01-19T10:53:29+01:00https://gitlab.inria.fr/vidjil/vidjil/-/issues/3886Testing spike-normalization.py2021-01-19T10:53:29+01:00Mathieu GiraudTesting spike-normalization.pyDear @meidanis,
Thank you for d872b7733.
Could you put a short `.vidjil` test file (in `tools/tests/data`) to be given as an input as your script ?
Ideally we would like to have a short test `tools/tests/should-get-tests/spike-norma...Dear @meidanis,
Thank you for d872b7733.
Could you put a short `.vidjil` test file (in `tools/tests/data`) to be given as an input as your script ?
Ideally we would like to have a short test `tools/tests/should-get-tests/spike-normalization.should-get`.
For an example, run from `tools/tests/` the command `../should.py should-get-tests/fuse-three-files.should-get`
More documentation on http://should-test.net/.
cc @mikael\-s @flothoni2019-04-24https://gitlab.inria.fr/vidjil/vidjil/-/issues/3838Flexible strategy for MRD (and other things)2019-10-14T18:00:34+02:00Mathieu GiraudFlexible strategy for MRD (and other things)Discussed with @meidanis @mikael\-s @flothoni
- In `/spikes/spikes-A.json` :
```
'config': {
'labels': [
{ 'name': 'foobar', 'sequence': 'ACGTG...', 'copies': xxx, 'family'... }
```
- the ~"server\-config" says:
- la...Discussed with @meidanis @mikael\-s @flothoni
- In `/spikes/spikes-A.json` :
```
'config': {
'labels': [
{ 'name': 'foobar', 'sequence': 'ACGTG...', 'copies': xxx, 'family'... }
```
- the ~"server\-config" says:
- launch `vidjil-algo --label-json /spikes/spikes-A.json ....`
- launch `fuse.py --pre normalize.py`
- `vidil-algo` will understand only `name` and `sequence`, but will copy everything from `spikes-A.json`, including `copies` or other fields, to its `.vidjil` output #3837 #3839
- `normalize.py` adds `normalized_reads` where he wants (@meidanis)