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Etienne Pallier, 03/22/2016 11:31 am

Technical Documentation for the PYROS project (FGFT-CC)

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I - TODO

  • installation sur windows
  • gitlab
  • séparation des BD Django et Pyros
  • intégration dans Eclipse
  • Intégration des modules Django déjà développés

I - DATABASE SCHEMA (v0.2.1)

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II - Get the project (from gitlab)

Get the project from the terminal

git clone https://gitlab.irap.omp.eu/epallier/pyros.git PYROS

(or also : git clone git@gitlab.irap.omp.eu:epallier/pyros.git)

This creates a PYROS/ folder containing the project (with a .git/ subfolder for synchronization with the git repository)

If you just wanted a static copy of the project (without synchronization) just remove the .git/ folder:

$ rm -r .git/

You should obtain this structure:


PYROS/
├── REQUIREMENTS.txt
├── private/
│   └── venv_py35_pyros/
├── public/
│   └── static/
├── src/
│   ├── manage.py
│   ├── pyros/
│   │   ├── __init__.py
│   │   ├── __pycache__
│   │   ├── settings.py
│   │   ├── urls.py
│   │   └── wsgi.py
│   └── pyrosapp/
│       ├── __init__.py
│       ├── admin.py
│       ├── apps.py
│       ├── migrations
│       ├── models.py
│       ├── tests.py
│       └── views.py

Get the project from Eclipse

TODO:

III - INSTALLATION

Install MySql (only if necessary)

  • Linux Ubuntu
    
$ sudo apt-get install mysql-server
$ sudo apt-get install mysql-client
  • Linux CentOS
    TODO:
$ sudo yum install mysql
...
  • Mac OS X
    Install XAMPP
    (but you could also use the pre-installed Mac OS MySql)
    TODO:
  • Windows
    Install XAMPP
    TODO:

Install Python3.5 (only if necessary)

  • Mac OS X :
    
1) Installer MacPort
(TODO: doc)

2) Installer le "port" python35
$ sudo port install python35
  • Linux (Ubuntu) :
    sudo add-apt-repository ppa:fkrull/deadsnakes
sudo apt-get update
sudo apt-get install python3.5

sudo pip install virtualenv
  • Windows 10 :
    TODO:

Create a Python3 virtual environment dedicated to the project (inside the project folder)


$ mkdir private/

$ cd private/

$ which python3.5
/opt/local/bin/python3.5

$ virtualenv-3.5 venv_py35_pyros -p /opt/local/bin/python3.5
=> creates a venv_py35_pyros/ folder inside PYROS/private/

Activate the python virtual environment (from inside the project)


$ pwd
.../PYROS/private

$ source ./venv_py35_pyros/bin/activate

$ python -V
Python 3.5.1

$ which pip
.../PYROS/venv_py35_pyros/bin/pip

Upgrade pip to last version available:
$ pip install --upgrade pip
Collecting pip
  Downloading pip-8.1.1-py2.py3-none-any.whl (1.2MB)
Installing collected packages: pip
  Found existing installation: pip 7.1.2
    Uninstalling pip-7.1.2:
      Successfully uninstalled pip-7.1.2
Successfully installed pip-8.1.1

Upgrade wheel to last version available:
$ pip install --upgrade wheel
Collecting wheel
  Downloading wheel-0.29.0-py2.py3-none-any.whl (66kB)
Installing collected packages: wheel
  Found existing installation: wheel 0.24.0
    Uninstalling wheel-0.24.0:
      Successfully uninstalled wheel-0.24.0
Successfully installed wheel-0.29.0

Install the needed Python packages (from within the virtual environment)

First, be sure that the virtual environment is activated:

$ python -V
Python 3.5.1

  • Automatic Installation of all packages
    $ pip install -r REQUIREMENTS.txt
  • Or, manual installation of each package
    • Install Django :
      $ pip install django
Collecting django
  Downloading Django-1.9.4-py2.py3-none-any.whl (6.6MB)
Installing collected packages: django
Successfully installed django-1.9.4

$ pip install django-admin-tools
Collecting django-admin-tools
  Downloading django_admin_tools-0.7.2-py2.py3-none-any.whl (289kB)
Installing collected packages: django-admin-tools
Successfully installed django-admin-tools-0.7.2

$ pip install django-debug-toolbar
Collecting django-debug-toolbar
  Downloading django_debug_toolbar-1.4-py2.py3-none-any.whl (212kB)
Requirement already satisfied (use --upgrade to upgrade): Django>=1.7 in ./venv_py35_pyros/lib/python3.5/site-packages (from django-debug-toolbar)
Collecting sqlparse (from django-debug-toolbar)
  Downloading sqlparse-0.1.19.tar.gz (58kB)
Building wheels for collected packages: sqlparse
  Running setup.py bdist_wheel for sqlparse ... done
  Stored in directory: /Users/epallier/Library/Caches/pip/wheels/7b/d4/72/6011bb100dd5fc213164e4bbee13d4e03261dd54ce6a5de6b8
Successfully built sqlparse
Installing collected packages: sqlparse, django-debug-toolbar
Successfully installed django-debug-toolbar-1.4 sqlparse-0.1.19

$ pip install django-extensions
Collecting django-extensions
  Downloading django_extensions-1.6.1-py2.py3-none-any.whl (202kB)
Collecting six>=1.2 (from django-extensions)
  Downloading six-1.10.0-py2.py3-none-any.whl
Installing collected packages: six, django-extensions
Successfully installed django-extensions-1.6.1 six-1.10.0

$ pip install django-suit
Collecting django-suit
  Downloading django-suit-0.2.18.tar.gz (587kB)
Building wheels for collected packages: django-suit
  Running setup.py bdist_wheel for django-suit ... done
  Stored in directory: /Users/epallier/Library/Caches/pip/wheels/12/8b/9a/e02ab0ad9229881638aa040d47d77c8f562999533811927d41
Successfully built django-suit
Installing collected packages: django-suit
Successfully installed django-suit-0.2.18
    • Install the web application server gunicorn (will be used in production instead of the dev django web server) :
      $ pip install gunicorn
Collecting gunicorn
  Downloading gunicorn-19.4.5-py2.py3-none-any.whl (112kB)
Installing collected packages: gunicorn
Successfully installed gunicorn-19.4.5
    • Install the python mysql client:
      $ pip install mysqlclient
...
      • => Issue under Mac OS X:
        $ pip install mysqlclient
Collecting mysqlclient
  Downloading mysqlclient-1.3.7.tar.gz (79kB)
Building wheels for collected packages: mysqlclient
  Running setup.py bdist_wheel for mysqlclient ... error
…
  ----------------------------------------
  Failed building wheel for mysqlclient
  Running setup.py clean for mysqlclient
Failed to build mysqlclient
Installing collected packages: mysqlclient
  Running setup.py install for mysqlclient ... done
Successfully installed mysqlclient-1.3.7

BOUH !!!

$ pip install --upgrade wheel
Collecting wheel
  Downloading wheel-0.29.0-py2.py3-none-any.whl (66kB)
Installing collected packages: wheel
  Found existing installation: wheel 0.24.0
    Uninstalling wheel-0.24.0:
      Successfully uninstalled wheel-0.24.0
Successfully installed wheel-0.29.0

$ pip uninstall mysqlclient

$ pip install mysqlclient
Collecting mysqlclient
  Using cached mysqlclient-1.3.7.tar.gz
Building wheels for collected packages: mysqlclient
  Running setup.py bdist_wheel for mysqlclient ... done
  Stored in directory: /Users/epallier/Library/Caches/pip/wheels/9b/06/50/d11418c26cf8f2156b13d4363b5afde8e7e75ebb8540d0228d
Successfully built mysqlclient
Installing collected packages: mysqlclient
Successfully installed mysqlclient-1.3.7

YES !!!
      • => Issues under Ubuntu:
        $ pip install mysqlclient
Collecting mysqlclient
  Downloading mysqlclient-1.3.7.tar.gz (79kB)
    100% |████████████████████████████████| 81kB 1.5MB/s
    Complete output from command python setup.py egg_info:
    /bin/sh: 1: mysql_config: not found
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
    [...]
    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-q6j4inuz/mysqlclient/

BOUH !!!

$ sudo apt-get install libmysqlclient-dev

$ pip install mysqlclient
Collecting mysqlclient
  Using cached mysqlclient-1.3.7.tar.gz
Building wheels for collected packages: mysqlclient
  Running setup.py bdist_wheel for mysqlclient ... error
…
    _mysql.c:40:20: fatal error: Python.h: No such file or directory
     #include "Python.h" 
                        ^
    compilation terminated.
    error: command 'x86_64-linux-gnu-gcc' failed with exit status 1

    ----------------------------------------
Command "/home/carens_p/pyros/venv_py35_pyros/bin/python3.5 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-k3klv92j/mysqlclient/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-gz242xxs-record/install-record.txt --single-version-externally-managed --compile --install-headers /home/carens_p/pyros/venv_py35_pyros/include/site/python3.5/mysqlclient" failed with error code 1 in /tmp/pip-build-k3klv92j/mysqlclient/

BOUH !!!

$ sudo apt-get install python3.5-dev

$ pip install mysqlclient

YES !!!

Test the project


$ cd src/

$ ./manage.py runserver
(or gunicorn pyros.wsgi)
==> http://localhost:8000
...
...
Ctrl-c

IV - CONFIGURATION of the Django Back Office (administration interface)

Back Office setup

  • Prerequisites in src/pyros/settings.py :
    • INSTALLED_APPS must (at least) contain :
      • django.contrib.admin
      • django.contrib.auth
      • django.contrib.contenttypes
      • django.contrib.sessions
    • MIDDLEWARES must (at least) contain :
      • django.contrib.sessions.middleware.SessionMiddleware
      • django.middleware.common.CommonMiddleware
      • django.contrib.auth.middleware.AuthenticationMiddleware
  • At least one 'python manage.py migrate' must have been executed
  • Create a superuser for the administration :
$ python manage.py createsuperuser
  • For each app of the project, fill the admin.py file :
from django.contrib import admin
from app.models import Model1, Model2

admin.site.register(Model1)
admin.site.register(Model2)

Reminder : each application must be registered in the settings.py INSTALLED_APPS variable.

  • For each model in models.py, add a '__str__()' method in order to identify the object on the back office. Example :
class UserLevel(models.Model):
    name = models.CharField(max_length=45, blank=True, null=True)
    desc = models.TextField(blank=True, null=True)
    priority = models.IntegerField(blank=True, null=True)
    quota = models.FloatField(blank=True, null=True)

    class Meta:
        managed = True
        db_table = 'userlevel'

    def __str__(self):
        return (str(self.name))

Naming convention : Use self.name when possible, the creation time/date otherwise. Example :

class SiteWatch(models.Model):
    updated = models.DateTimeField(blank=True, null=True)
    lights = models.CharField(max_length=45, blank=True, null=True)
    dome = models.CharField(max_length=45, blank=True, null=True)
    doors = models.CharField(max_length=45, blank=True, null=True)
    temperature = models.FloatField(blank=True, null=True)

    class Meta:
        managed = True
        db_table = 'sitewatch'

    def __str__(self):
        return (str(self.updated))

Adaptation of the one-to-many and many-to-many display

  • The one-to-many relationships are the following (One.many format) :
    • Schedule.sequences
    • Request.sequences
    • Sequence.albums
    • Album.plans
    • Plan.images
    • Telescope.detectors
    • Detector.filters
    • NrtAnalysis.images
    • Filter.plans
    • Detector.albums
    • UserLevel.users
    • Country.users
    • ScientificProgram.requests
    • User.requests
    • StrategyObs.alerts
    • SequenceType.sequences
  • For each "many", create a new class in admin.py just after the imports, following these examples :

For Schedule.sequences, Request.sequences and Sequentype.sequences, we will need :

class SequenceInline(admin.TabularInline):
    model = Sequence
    fields = ("name",)
    show_change_link = True

For Sequence.albums and Detector.albums, we will need :

class AlbumInline(admin.TabularInline):
    model = Album
    fields = ("name",)
    show_change_link = True

For StrategyObs.alerts, we will need :

class AlertInline(admin.TabularInline):
    model = Alert
    fields = ("request.name",) # there is no 'name' attribute in the Alert model
    show_change_link = True
  • For each "One", declare a new class in admin.py, just after the "Inlines" class declaration, as done in the following examples :
For Request.sequences :

class RequestAdmin(admin.ModelAdmin):
    inlines = [
    SequenceInline,
    ]

For Detector.filters and Detector.albums :

class DetectorAdmin(admin.ModelAdmin):
    inlines = [
    FilterInline,
        AlbumInline,
    ]
  • The many-to-many relationships are the following :
    • ScientificProgram - User
    • ScheduleHistory - Sequence
  • For each many-to-many relationship, declare a new "Inline" class in admin.py just after the imports, like this :
For ScientificProgram - User :

class UserAndSPInline(admin.TabularInline):
    model = ScientificProgram.users.through

For ScheduleHistory - Sequence

class SequenceAndSHInline(admin.TabularInline):
    model = ScheduleHistory.sequences.through

Note : The order in the line "model = ScientificProgram.users.through" is very important : the first model (ScientificProgram) is the one in which is declared the ManyToManyField relationship.

  • For each many-to-many relationship, declare two new classes in admin.py, just after the inlines, like in the following examples :
For the ScheduleHistory - Sequence relationship :

class ScheduleHistoryAdmin(admin.ModelAdmin):
    inlines = [
        SequenceAndSHInline,
    ]
    exclude = ('sequences',) # ScheduleHistory declares the ManyToManyField, and we want to replace its display in the back office, so we won't display the default field

class SequenceAdmin(admin.ModelAdmin):
    inlines = [
        AlbumInline,        # This is the Inline for the one-to-many relationship Sequence.albums
        SequenceAndSHInline,                                                                
    ]

For the ScientificProgram - User relationship :

class ScientificProgramAdmin(admin.ModelAdmin):
    inlines = [
        RequestInline,
    UserAndSPInline,                                                                         
    ]
    exclude = ('users',) # Same as ScheduleHistory                                                                         

class UserAdmin(admin.ModelAdmin):
    inlines = [
    RequestInline,   # This is the Inline for the one-to-many relationship User.requests
        UserAndSPInline,                                                                    
    ]
  • For each ModelAdmin class in the admin.py, change the registering line
admin.site.register(Album)

to

admin.site.register(Album, AlbumAdmin)

V - INSTALLATION FROM THE BEGINNING (for dev only, history of the initial project creation)

Pyros installation from the beginning

pyros intro.pdf (77.7 KB) Etienne Pallier, 02/06/2019 05:04 pm

pyros specs.pdf (1.8 MB) Etienne Pallier, 02/06/2019 05:04 pm

pyros dev-guide.pdf (649 KB) Etienne Pallier, 02/06/2019 05:04 pm