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Omicsmaps.com is down
Hello!
We are really interested in how many HiSeq2000 and 2500 owners are out there as we are hacking and re-purposing these machines. I found your blog post from 2015 about keeping this site up, I am guessing it's fallen to the wayside a bit as omicsmaps.com seems to be down.
I am a web developer and up for helping out. I cloned the repo but there seems to be some issue with the database setup (i'll open another issue).
Improperly configured database settings
I ran
pip install -r requirements.txt
python manage.py runserver
It seems to work but I get an internal server error (500) on the /data.json endpoint. I tried amending settings.py but get the same error.
DATABASE_ENGINE = 'sqlite3' # 'postgresql_psycopg2', 'postgresql', 'mysql', 'sqlite3' or 'oracle'.
-DATABASES = {}
-
-#DATABASES = {
-# 'default': {
-# 'ENGINE': 'django.db.backends.sqlite3',
-# 'NAME': ROOT_DIRECTORY + '/htseq/db/htseq.sqlite',
-# }
-#}
+#DATABASES = {}
+
+DATABASES = {
+ 'default': {
+ 'ENGINE': 'django.db.backends.sqlite3',
+ 'NAME': ROOT_DIRECTORY + '/htseq/db/htseq.sqlite',
+ }
+}Error:
ImproperlyConfigured at /data.json
settings.DATABASES is improperly configured. Please supply the ENGINE value. Check settings documentation for more details.
Request Method: GET
Request URL: http://localhost:8000/data.json?cachebust
Django Version: 1.7.2
Python Executable: /home/kaspar/projects/reseq/omicsmaps/venv/bin/python
Python Version: 2.7.12
Python Path: ['/home/kaspar/projects/reseq/omicsmaps', '/home/kaspar/projects/reseq/omicsmaps/venv/bin', '/home/kaspar/projects/reseq/omicsmaps/venv/lib/python2.7', '/home/kaspar/projects/reseq/omicsmaps/venv/lib/python2.7/plat-x86_64-linux-gnu', '/home/kaspar/projects/reseq/omicsmaps/venv/lib/python2.7/lib-tk', '/home/kaspar/projects/reseq/omicsmaps/venv/lib/python2.7/lib-old', '/home/kaspar/projects/reseq/omicsmaps/venv/lib/python2.7/lib-dynload', '/usr/lib/python2.7', '/usr/lib/python2.7/plat-x86_64-linux-gnu', '/usr/lib/python2.7/lib-tk', '/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages', '/home/kaspar/projects/reseq/omicsmaps/venv/lib/python2.7/site-packages']
Server time: Tue, 15 Jan 2019 15:50:21 +0000
Installed Applications:
('django.contrib.auth',
'django.contrib.contenttypes',
'django.contrib.sessions',
'django.contrib.sites',
'django.contrib.admin',
'django.contrib.staticfiles',
'htseq.centres',
'htseq.stats',
'htseq.serial')
Installed Middleware:
('django.middleware.gzip.GZipMiddleware',
'django.contrib.sessions.middleware.SessionMiddleware',
'django.middleware.common.CommonMiddleware',
'django.middleware.csrf.CsrfViewMiddleware',
'django.contrib.auth.middleware.AuthenticationMiddleware',
'django.contrib.auth.middleware.SessionAuthenticationMiddleware',
'django.contrib.messages.middleware.MessageMiddleware',
'django.middleware.clickjacking.XFrameOptionsMiddleware')
Traceback:
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/core/handlers/base.py" in get_response
111. response = wrapped_callback(request, *callback_args, **callback_kwargs)
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/utils/decorators.py" in _wrapped_view
105. response = view_func(request, *args, **kwargs)
File "/home/kaspar/projects/reseq/omicsmaps/htseq/centres/views.py" in json_list
94. centres = get_centres_with_count()
File "/home/kaspar/projects/reseq/omicsmaps/htseq/centres/views.py" in get_centres_with_count
70. for capacity in centrecapacitylist:
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/query.py" in __iter__
141. self._fetch_all()
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/query.py" in _fetch_all
966. self._result_cache = list(self.iterator())
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/query.py" in iterator
265. for row in compiler.results_iter():
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/sql/compiler.py" in results_iter
700. for rows in self.execute_sql(MULTI):
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/sql/compiler.py" in execute_sql
775. sql, params = self.as_sql()
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/sql/compiler.py" in as_sql
100. out_cols, s_params = self.get_columns(with_col_aliases)
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/sql/compiler.py" in get_columns
246. col_aliases)
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/sql/compiler.py" in get_default_columns
328. r = '%s.%s' % (qn(alias), qn2(column))
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/models/sql/compiler.py" in __call__
62. r = self.connection.ops.quote_name(name)
File "/home/kaspar/projects/reseq/omicsmaps/venv/local/lib/python2.7/site-packages/django/db/backends/dummy/base.py" in complain
18. raise ImproperlyConfigured("settings.DATABASES is improperly configured. "
Exception Type: ImproperlyConfigured at /data.json
Exception Value: settings.DATABASES is improperly configured. Please supply the ENGINE value. Check settings documentation for more details.
Request information:
GET:
cachebust = u''
POST: No POST data
FILES: No FILES data
COOKIES:
_pk_id.1.1fff = '12ff3b11272eb91c.1544137550.15.1545669263.1545669263.'
META:
HTTP_REFERER = 'http://localhost:8000/'
SERVER_SOFTWARE = 'gunicorn/19.1.1'
SCRIPT_NAME = u''
REQUEST_METHOD = 'GET'
PATH_INFO = u'/data.json'
SERVER_PROTOCOL = 'HTTP/1.1'
QUERY_STRING = 'cachebust'
HTTP_USER_AGENT = 'Mozilla/5.0 (X11; Linux x86_64; rv:60.0) Gecko/20100101 Firefox/60.0'
HTTP_CONNECTION = 'keep-alive'
HTTP_COOKIE = '_pk_id.1.1fff=12ff3b11272eb91c.1544137550.15.1545669263.1545669263.'
SERVER_NAME = '127.0.0.1'
REMOTE_ADDR = '127.0.0.1'
wsgi.url_scheme = 'http'
SERVER_PORT = '8000'
HTTP_X_REQUESTED_WITH = 'XMLHttpRequest'
REMOTE_PORT = '46370'
wsgi.input = <gunicorn.http.body.Body object at 0x7fd788320d10>
HTTP_DNT = '1'
HTTP_HOST = 'localhost:8000'
wsgi.multithread = False
HTTP_CACHE_CONTROL = 'max-age=0'
HTTP_ACCEPT = 'application/json, text/javascript, */*'
wsgi.version =
RAW_URI = '/data.json?cachebust'
wsgi.run_once = False
wsgi.errors = <gunicorn.http.wsgi.WSGIErrorsWraper object at 0x7fd788320f10>
wsgi.multiprocess = False
HTTP_ACCEPT_LANGUAGE = 'en-GB,en;q=0.5'
gunicorn.socket = <socket._socketobject object at 0x7fd788307980>
wsgi.file_wrapper = ''
CSRF_COOKIE = u'4ResClbmrHfKxWdWjPaH6lIvd3IdajcV'
HTTP_ACCEPT_ENCODING = 'gzip, deflate'
Settings:
Using settings module htseq.settings
USE_L10N = False
USE_THOUSAND_SEPARATOR = False
CSRF_COOKIE_SECURE = False
LANGUAGE_CODE = 'en-us'
ROOT_URLCONF = 'htseq.urls'
MANAGERS = ('Nick Loman', '[email protected]')
SEND_BROKEN_LINKS_EMAIL = True
BASE_DIR = '/home/kaspar/projects/reseq/omicsmaps/htseq'
TEST_NON_SERIALIZED_APPS = []
DEFAULT_CHARSET = 'utf-8'
SESSION_SERIALIZER = 'django.contrib.sessions.serializers.JSONSerializer'
STATIC_ROOT = 'staticfiles'
ALLOWED_HOSTS = ['*']
MESSAGE_STORAGE = 'django.contrib.messages.storage.fallback.FallbackStorage'
EMAIL_SUBJECT_PREFIX = '[Django] '
SEND_BROKEN_LINK_EMAILS = False
STATICFILES_FINDERS =
SESSION_CACHE_ALIAS = 'default'
SESSION_COOKIE_DOMAIN = None
SESSION_COOKIE_NAME = 'sessionid'
ADMIN_FOR =
TIME_INPUT_FORMATS =
DATABASES = {'default': {'AUTOCOMMIT': True, 'ENGINE': 'django.db.backends.dummy', 'ATOMIC_REQUESTS': False, 'NAME': '', 'CONN_MAX_AGE': 0, 'TIME_ZONE': 'Europe/London', 'OPTIONS': {}, 'HOST': '', 'USER': '', 'TEST': {'COLLATION': None, 'CHARSET': None, 'NAME': None, 'MIRROR': None}, 'PASSWORD': u'********************', 'PORT': ''}}
FILE_UPLOAD_DIRECTORY_PERMISSIONS = None
FILE_UPLOAD_PERMISSIONS = None
GEOIP_DATA = '/home/kaspar/projects/reseq/omicsmaps/htseq/geoip/GeoIP.dat'
FILE_UPLOAD_HANDLERS =
TEMPLATE_CONTEXT_PROCESSORS =
DEFAULT_CONTENT_TYPE = 'text/html'
APPEND_SLASH = True
LOCALE_PATHS =
DATABASE_ROUTERS = []
DEFAULT_TABLESPACE = ''
ROOT_DIRECTORY = '/home/kaspar/projects/reseq/omicsmaps'
YEAR_MONTH_FORMAT = 'F Y'
STATICFILES_STORAGE = 'django.contrib.staticfiles.storage.StaticFilesStorage'
CACHES = {'default': {'LOCATION': 'omicsmaps', 'BACKEND': 'django.core.cache.backends.locmem.LocMemCache'}}
SERVER_EMAIL = 'root@localhost'
SESSION_COOKIE_PATH = '/'
SILENCED_SYSTEM_CHECKS = []
MIDDLEWARE_CLASSES =
USE_I18N = True
THOUSAND_SEPARATOR = ','
SECRET_KEY = u'********************'
LANGUAGE_COOKIE_NAME = 'django_language'
FILE_UPLOAD_TEMP_DIR = None
TRANSACTIONS_MANAGED = False
LOGGING_CONFIG = 'logging.config.dictConfig'
TEMPLATE_LOADERS =
FIRST_DAY_OF_WEEK = 0
WSGI_APPLICATION = None
TEMPLATE_DEBUG = True
X_FRAME_OPTIONS = 'SAMEORIGIN'
CSRF_COOKIE_NAME = 'csrftoken'
FORCE_SCRIPT_NAME = ''
USE_X_FORWARDED_HOST = False
SIGNING_BACKEND = 'django.core.signing.TimestampSigner'
SESSION_COOKIE_SECURE = False
CSRF_COOKIE_DOMAIN = None
FILE_CHARSET = 'utf-8'
DEBUG = True
LANGUAGE_COOKIE_DOMAIN = None
DEFAULT_FILE_STORAGE = 'django.core.files.storage.FileSystemStorage'
INSTALLED_APPS =
LANGUAGES =
DATABASE_ENGINE = 'sqlite3'
STATICFILES_DIRS = '/home/kaspar/projects/reseq/omicsmaps/static'
PREPEND_WWW = False
SECURE_PROXY_SSL_HEADER =
LANGUAGE_COOKIE_AGE = None
SESSION_COOKIE_HTTPONLY = True
DEBUG_PROPAGATE_EXCEPTIONS = False
INTERNAL_IPS =
MONTH_DAY_FORMAT = 'F j'
GOOGLE_API_KEY = u'********************'
LOGIN_URL = '/accounts/login/'
SESSION_EXPIRE_AT_BROWSER_CLOSE = False
TIME_FORMAT = 'P'
AUTH_USER_MODEL = 'auth.User'
DATE_INPUT_FORMATS =
AUTHENTICATION_BACKENDS = 'django.contrib.auth.backends.ModelBackend'
EMAIL_HOST_PASSWORD = u'********************'
PASSWORD_RESET_TIMEOUT_DAYS = u'********************'
SESSION_FILE_PATH = None
CACHE_MIDDLEWARE_ALIAS = 'default'
SESSION_SAVE_EVERY_REQUEST = False
ADMIN_MEDIA_PREFIX = '/hts/media/'
NUMBER_GROUPING = 0
SESSION_ENGINE = 'django.contrib.sessions.backends.db'
CSRF_FAILURE_VIEW = 'django.views.csrf.csrf_failure'
CSRF_COOKIE_PATH = '/'
LOGIN_REDIRECT_URL = '/accounts/profile/'
DECIMAL_SEPARATOR = '.'
IGNORABLE_404_URLS =
STATIC_VERSION = 12
MIGRATION_MODULES = {}
TEMPLATE_STRING_IF_INVALID = ''
COMMENTS_ALLOW_PROFANITIES = False
LOGOUT_URL = '/accounts/logout/'
EMAIL_USE_TLS = False
FIXTURE_DIRS =
EMAIL_HOST = 'smtp.bham.ac.uk'
DATE_FORMAT = 'N j, Y'
MEDIA_ROOT = ''
DEFAULT_EXCEPTION_REPORTER_FILTER = 'django.views.debug.SafeExceptionReporterFilter'
ADMINS = ('Nick Loman', '[email protected]')
FORMAT_MODULE_PATH = None
DEFAULT_FROM_EMAIL = 'webmaster@localhost'
MEDIA_URL = ''
DATETIME_FORMAT = 'N j, Y, P'
TEMPLATE_DIRS = '/home/kaspar/projects/reseq/omicsmaps/htseq/templates'
SITE_ID = 1
DISALLOWED_USER_AGENTS =
ALLOWED_INCLUDE_ROOTS =
LOGGING = {}
SHORT_DATE_FORMAT = 'm/d/Y'
TEST_RUNNER = 'django.test.runner.DiscoverRunner'
CACHE_MIDDLEWARE_KEY_PREFIX = u'********************'
TIME_ZONE = 'Europe/London'
FILE_UPLOAD_MAX_MEMORY_SIZE = 2621440
EMAIL_BACKEND = 'django.core.mail.backends.smtp.EmailBackend'
EMAIL_USE_SSL = False
STATIC_PATH = '/static'
SESSION_COOKIE_AGE = 1209600
SETTINGS_MODULE = 'htseq.settings'
USE_ETAGS = False
LANGUAGES_BIDI =
DEFAULT_INDEX_TABLESPACE = ''
CSRF_COOKIE_AGE = 31449600
STATIC_URL = '/static/'
EMAIL_PORT = 25
USE_TZ = False
SHORT_DATETIME_FORMAT = 'm/d/Y P'
PASSWORD_HASHERS = u'********************'
ABSOLUTE_URL_OVERRIDES = {}
LANGUAGE_COOKIE_PATH = '/'
CACHE_MIDDLEWARE_SECONDS = 600
CSRF_COOKIE_HTTPONLY = False
DATETIME_INPUT_FORMATS =
EMAIL_HOST_USER = ''
PROFANITIES_LIST = u'********************'
You're seeing this error because you have DEBUG = True in your
Django settings file. Change that to False, and Django will
display a standard 500 page.
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