Add files via upload

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tpollina 2019-12-13 14:51:50 -08:00 committed by GitHub
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3 changed files with 37 additions and 31 deletions

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@ -21,6 +21,34 @@ Example:
python3.7 $HOME/PlanktonScope/scripts/pump.py 1 10 suck python3.7 $HOME/PlanktonScope/scripts/pump.py 1 10 suck
_________________
### Image
##### image.py `in_path` `sample_project` `sample_id` `acq_id` `volume` `flowrate`
- `in_path` : **string** - directory to store acquisitions **the path has to end with /**
- `sample_project` : **string**
- `sample_id` : **string**
- `acq_id` : **string**
- `volume` : **integer**
- `flowrate` : **float**
Example:
python3.7 $HOME/PlanktonScope/scripts/image.py $HOME/PlanktonScope/Acquisitions/ tara_pacific station_125 exp_1 24 3.2
_________________
### Light
##### light.py `state`
- `state` : **string**
Example:
python3.7 $HOME/PlanktonScope/scripts/light.py on
_________________ _________________
### Killing Focus or Pump event ### Killing Focus or Pump event
##### killer.sh `event_to_kill.py` ##### killer.sh `event_to_kill.py`
@ -32,20 +60,6 @@ Example:
bash $HOME/PlanktonScope/scripts/killer.sh pump.py bash $HOME/PlanktonScope/scripts/killer.sh pump.py
_________________
### Image
##### image.py `sample_project` `sample_id` `acq_id` `volume` `flowrate`
-`sample_project` : **string**
- `sample_id` : **string**
- `acq_id` : **string**
- `volume` : **integer**
- `flowrate` : **float**
Example:
python3.7 $HOME/PlanktonScope/scripts/pump.py tara_pacific station_125 exp_1 24 3.2
_________________ _________________
### Kill Image ### Kill Image
##### kill_image.sh image.py `sample_project` `sample_id` `acq_id` ##### kill_image.sh image.py `sample_project` `sample_id` `acq_id`
@ -58,13 +72,3 @@ Example:
bash $HOME/PlanktonScope/scripts/killer.sh image.py tara_pacific station_125 exp_1 bash $HOME/PlanktonScope/scripts/killer.sh image.py tara_pacific station_125 exp_1
_________________
### Light
##### light.py `state`
- `state` : **string**
Example:
python3.7 $HOME/PlanktonScope/scripts/light.py on

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@ -11,20 +11,22 @@ from datetime import datetime, timedelta
import os import os
import sys import sys
in_path = str(sys.argv[1])
#[t] : ex:tara_pacific #[t] : ex:tara_pacific
sample_project = str(sys.argv[1]) sample_project = str(sys.argv[2])
#[t] : unique identifier #[t] : unique identifier
sample_id = str(sys.argv[2]) sample_id = str(sys.argv[3])
#[t] : unique identifier #[t] : unique identifier
acq_id = str(sys.argv[3]) acq_id = str(sys.argv[4])
#[i] : ex:24ml #[i] : ex:24ml
volume = int(sys.argv[4]) volume = int(sys.argv[5])
#[f] : ex:3.2ml/min #[f] : ex:3.2ml/min
flowrate = float(sys.argv[5]) flowrate = float(sys.argv[6])
warm_up_duration=3 warm_up_duration=3
@ -34,7 +36,7 @@ max_fps = 0.7
nb_frame = int(duration/max_fps) nb_frame = int(duration/max_fps)
path= "/home/pi/"+sample_project+"/"+sample_id+"/"+acq_id+"/" path= in_path+sample_project+"/"+sample_id+"/"+acq_id+"/"
if not os.path.exists(path): if not os.path.exists(path):
os.makedirs(path) os.makedirs(path)

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@ -3,6 +3,6 @@
scrip_name=$1 scrip_name=$1
kill -9 `ps ax | grep "$scrip_name" | head -1 | awk '{print $1}' kill -9 `ps ax | grep "$scrip_name" | head -1 | awk '{print $1}'`
python3.7 $HOME/PlanktonScope/scripts/recover.py python3.7 $HOME/PlanktonScope/scripts/recover.py