Download stats for Bioconductor workflow packages

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Versions

Installed Packages

Installation paths relative to:

/home/ubuntu/bio-web-stats/.venv/lib/python3.10/site-packages

Package	Version	Installed Path
alembic	1.13.1
awswrangler	3.7.2
beautifulsoup4	4.12.2
black	23.10.0
blinker	1.7.0
boto3	1.34.15
botocore	1.34.15
cachelib	0.9.0
certifi	2023.11.17
charset-normalizer	3.3.2
click	8.1.7
coverage	7.4.0
cramjam	2.7.0
dnspython	2.4.2
email-validator	2.0.0.post2
environs	9.5.0
exceptiongroup	1.2.0
factory-boy	3.3.0
Faker	22.1.0
fastparquet	2023.10.1
flake8	6.1.0
flake8-blind-except	0.2.1
flake8-debugger	4.1.2
flake8-docstrings	1.7.0
flake8-isort	6.1.0
flask	2.3.3
Flask-Caching	2.1.0
Flask-DebugToolbar	0.13.1
Flask-Migrate	4.0.5
flask-sqlalchemy	3.1.1
Flask-Static-Digest	0.4.0
flask-wtf	1.2.1
fsspec	2023.12.2
gevent	23.9.1
greenlet	3.0.1
gunicorn	21.2.0
idna	3.6
iniconfig	2.0.0
isort	5.12.0
itsdangerous	2.1.2
Jinja2	3.1.2
jmespath	1.0.1
Mako	1.3.0
MarkupSafe	2.1.3
marshmallow	3.20.2
mccabe	0.7.0
mypy-extensions	1.0.0
numpy	1.26.3
packaging	23.2
pandas	2.1.4
pathspec	0.12.1
pep8-naming	0.13.3
pip	22.0.2
platformdirs	4.1.0
playwright	1.40.0
pluggy	1.3.0
psycopg2-binary	2.9.9
pyarrow	15.0.2
pycodestyle	2.11.1
pydocstyle	6.3.0
pyee	11.0.1
pyflakes	3.1.0
pytest	7.4.2
pytest-base-url	2.0.0
pytest-cov	4.1.0
pytest-playwright	0.4.3
python-dateutil	2.8.2
python-dotenv	1.0.0
python-slugify	8.0.1
pytz	2023.3.post1
requests	2.31.0
s3transfer	0.10.0
setuptools	59.6.0
six	1.16.0
snowballstemmer	2.2.0
soupsieve	2.5
SQLAlchemy	2.0.22
supervisor	4.2.5
text-unidecode	1.3
tomli	2.0.1
typing-extensions	4.9.0
tzdata	2023.4
urllib3	2.0.7
waitress	2.1.2
WebOb	1.8.7
webstats-web	0.1.1
WebTest	3.0.0
werkzeug	2.3.7
wheel	0.37.1
wtforms	3.1.0
zope.event	5.0
zope.interface	6.1

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Resource Usage

Resource	Value
User CPU time	7.181 msec
System CPU time	0.000 msec
Total CPU time	7.181 msec
Elapsed time	127.252 msec
Context switches	5 voluntary, 0 involuntary

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HTTP Headers

Key	Value
HTTP_ACCEPT	/
HTTP_CONNECTION	Keep-Alive
HTTP_HOST	master.bioconductor.org
HTTP_USER_AGENT	Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)
QUERY_STRING
REMOTE_ADDR	172.30.2.48
REQUEST_METHOD	GET
SCRIPT_NAME
SERVER_NAME	0.0.0.0
SERVER_PORT	8000
SERVER_PROTOCOL	HTTP/1.1
SERVER_SOFTWARE	gunicorn/21.2.0

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Request Vars

View information

View Function	args	kwargs
bioc_webstats.stats.show_package_summary	[]	category=workflows

COOKIES Variables

Variable	Value

SESSION Variables

No SESSION data

GET Variables

Variable	Value

POST Variables

Variable	Value

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Config

Key	Value
APPLICATION_ROOT	`'/'`
AWS_PARAMETER_PATH	`None`
CACHE_TYPE	`'SimpleCache'`
DEBUG	`True`
DEBUG_TB_ENABLED	`True`
DEBUG_TB_HOSTS	`()`
DEBUG_TB_INTERCEPT_REDIRECTS	`False`
DEBUG_TB_PANELS	('flask_debugtoolbar.panels.versions.VersionDebugPanel', 'flask_debugtoolbar.panels.timer.TimerDebugPanel', 'flask_debugtoolbar.panels.headers.HeaderDebugPanel', 'flask_debugtoolbar.panels.request_vars.RequestVarsDebugPanel', 'flask_debugtoolbar.panels.config_vars.ConfigVarsDebugPanel', 'flask_debugtoolbar.panels.template.TemplateDebugPanel', 'flask_debugtoolbar.panels.sqlalchemy.SQLAlchemyDebugPanel', 'flask_debugtoolbar.panels.logger.LoggingPanel', 'flask_debugtoolbar.panels.route_list.RouteListDebugPanel', 'flask_debugtoolbar.panels.profiler.ProfilerDebugPanel', 'flask_debugtoolbar.panels.g.GDebugPanel')
ENV	`'development'`
EXPLAIN_TEMPLATE_LOADING	`False`
FLASK_STATIC_DIGEST_BLACKLIST_FILTER	`[]`
FLASK_STATIC_DIGEST_COMPRESSION	`['gzip']`
FLASK_STATIC_DIGEST_HOST_URL	`None`
MAX_CONTENT_LENGTH	`None`
MAX_COOKIE_SIZE	`4093`
PERMANENT_SESSION_LIFETIME	`datetime.timedelta(days=31)`
PREFERRED_URL_SCHEME	`'http'`
PROPAGATE_EXCEPTIONS	`None`
SECRET_KEY	`'1849cb85026145adc5164b9568d6afbde65351264f87c25aebdadc576ae662f5'`
SEND_FILE_MAX_AGE_DEFAULT	`604800`
SERVER_NAME	`None`
SESSION_COOKIE_DOMAIN	`None`
SESSION_COOKIE_HTTPONLY	`True`
SESSION_COOKIE_NAME	`'session'`
SESSION_COOKIE_PATH	`None`
SESSION_COOKIE_SAMESITE	`None`
SESSION_COOKIE_SECURE	`False`
SESSION_REFRESH_EACH_REQUEST	`True`
SQLALCHEMY_BINDS	`{}`
SQLALCHEMY_DATABASE_URI	`'postgresql://postgres:NUhuT2Kt0oHGKDmdbt2I@bioc-webstats-prod2-cluster.cluster-c3dvjslgzl5u.us-east-1.rds.amazonaws.com:5432/webstats'`
SQLALCHEMY_ECHO	`False`
SQLALCHEMY_ENGINE_OPTIONS	`{}`
SQLALCHEMY_RECORD_QUERIES	`False`
SQLALCHEMY_TRACK_MODIFICATIONS	`False`
TEMPLATES_AUTO_RELOAD	`None`
TESTING	`False`
TRAP_BAD_REQUEST_ERRORS	`None`
TRAP_HTTP_EXCEPTIONS	`False`
URI_PATH_PREFIX	`'/packages/stats'`
USE_X_SENDFILE	`False`
WTF_CSRF_CHECK_DEFAULT	`True`
WTF_CSRF_ENABLED	`True`
WTF_CSRF_FIELD_NAME	`'csrf_token'`
WTF_CSRF_HEADERS	`['X-CSRFToken', 'X-CSRF-Token']`
WTF_CSRF_METHODS	`{'POST', 'DELETE', 'PATCH', 'PUT'}`
WTF_CSRF_SSL_STRICT	`True`
WTF_CSRF_TIME_LIMIT	`3600`

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Templates

category.html

Variable	Value
category	<PackageType.WORKFLOWS: 'workflows'>
category_links	[['index.html', 'software'], ['data-annotation.html', 'annotation'], ['data-experiment.html', 'experiment']]
category_name	'workflow'
category_url_stem	'workflows'
csrf_token	<function generate_csrf at 0x7fa0a74b8160>
g	<flask.g of 'bioc_webstats'>
generated_date	datetime.date(2024, 4, 15)
request	<Request 'http://master.bioconductor.org/packages/stats/workflows.html' [GET]>
scores	defaultdict(<class 'list'>, {'A': [('annotation', 59, 8), ('arrays', 34, 12)], 'B': [('BiocMetaWorkflow', 19, 22), ('BP4RNAseq', 18, 24)], 'C': [('CAGEWorkflow', 18, 26), ('chipseqDB', 21, 18), ('csawUsersGuide', 16, 28), ('cytofWorkflow', 74, 7)], 'E': [('EGSEA123', 15, 29), ('eQTL', 2, 32), ('ExpHunterSuite', 16, 27), ('ExpressionNormalizationWorkflow', 27, 14)], 'F': [('fluentGenomics', 18, 25)], 'G': [('generegulation', 20, 19), ('GeoMxWorkflows', 160, 2)], 'H': [('highthroughputassays', 21, 17)], 'L': [('liftOver', 239, 1)], 'M': [('maEndToEnd', 42, 10), ('methylationArrayAnalysis', 113, 5)], 'P': [('proteomics', 4, 31)], 'R': [('recountWorkflow', 20, 20), ('RNAseq123', 131, 4), ('rnaseqDTU', 34, 13), ('rnaseqGene', 151, 3), ('RnaSeqGeneEdgeRQL', 96, 6)], 'S': [('seqpac', 19, 21), ('sequencing', 25, 15), ('simpleSingleCell', 39, 11), ('SingscoreAMLMutations', 19, 23), ('spicyWorkflow', 12, 30)], 'T': [('TCGAWorkflow', 52, 9)], 'V': [('variants', 24, 16)]})
session	<SecureCookieSession {}>
tab_page_prefix	'workflows'
top	[]
top_count	0

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SQLAlchemy queries

Queries Unavailable

The toolbar was unable to fetch the SQLAlchemy queries for this request. To enable the SQLAlchemy query display, please:

Install required libraries:
- Flask-SQLAlchemy

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Log Messages

No messages logged.

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Route List

URL route	Endpoint name	HTTP methods	Is alias	Redirect to
/	spash.home	GET, HEAD, OPTIONS	False	None
/packages/stats/	stats.show_package_summary	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>.html	stats.show_package_summary	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/	stats.show_package_details	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package>	stats.show_package_details	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package>/	stats.show_package_details	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package>/index.html	stats.show_package_details	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package>_<year>_stats.tab	stats.show_package_stats	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package>_pkg_scores.tab	stats.show_package_scores	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package>_stats.tab	stats.show_package_stats	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package_path>/<package>_<year>_stats.tab	stats.show_package_stats	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/<package_path>/<package>_stats.tab	stats.show_package_stats	GET, HEAD, OPTIONS	False	None
/packages/stats/<category>/index.html	stats.show_package_details	GET, HEAD, OPTIONS	False	None
/packages/stats/bioc/bioc_packages.txt	stats.show_packages	GET, HEAD, OPTIONS	False	None
/packages/stats/index.html	stats.show_package_summary	GET, HEAD, OPTIONS	False	None
/packages/stats/static/<path:filename>	stats.static_files	GET, HEAD, OPTIONS	False	None
/static/<path:filename>	static	GET, HEAD, OPTIONS	False	None

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flask.g content

Key	Value
debug_toolbar	<flask_debugtoolbar.DebugToolbarExtension object at 0x7fa0a73331c0>

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Versions

Installed Packages

Resource Usage

HTTP Headers

Request Vars

View information

COOKIES Variables

SESSION Variables

GET Variables

POST Variables

Config

Templates

category.html

SQLAlchemy queries

Queries Unavailable

Install required libraries:

Log Messages

Route List

Profiler not active

flask.g content