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import re
import requests
from lxml.html import parse
from requests.exceptions import ConnectionError
DO_FAIL=False # fail on error
def is_root_link(link):
pattern = re.compile("^/$")
return pattern.match(link)
def is_mailto_link(link):
pattern = re.compile("^mailto:.*")
return pattern.match(link)
def is_internal_link(link):
pattern = re.compile("^/.*")
return pattern.match(link)
def is_in_page_link(link):
pattern = re.compile("^#.*")
return pattern.match(link)
def get_links(doc):
return [x for x in [y.get("href") for y in doc.cssselect("a")] if not (
is_root_link(x)
or is_mailto_link(x))]
def verify_link(link):
if link[0] == "#":
# local link on page
return
print("verifying "+link)
try:
result = requests.get(link, timeout=20, verify=False)
if result.status_code == 200:
print(link+" ==> OK")
elif result.status_code == 307:
print(link+" ==> REDIRECT")
else:
print("ERROR: link `"+link+"` failed with status "
, result.status_code)
if DO_FAIL:
raise Exception("Failed verify")
except ConnectionError as ex:
print("ERROR: ", link, ex)
if DO_FAIL:
raise ex
def verify_static_file(link):
print("verifying "+link)
try:
result = requests.get(link, timeout=20, verify=False)
if (result.status_code == 200 and
result.content.find(bytes("Error: 404 Not Found", "utf-8")) <= 0):
print(link+" ==> OK")
else:
print("ERROR: link {}".format(link))
raise Exception("Failed verify")
except ConnectionError as ex:
print("ERROR: ", link, ex)
def check_page(host, start_url):
print("")
print("Checking links host "+host+" in page `"+start_url+"`")
doc = parse(start_url).getroot()
links = get_links(doc)
in_page_links = list(filter(is_in_page_link, links))
internal_links = list(filter(is_internal_link, links))
external_links = [x for x in links if not (is_internal_link(x) or is_in_page_link(x))]
for link in internal_links:
verify_link(host+link)
for link in external_links:
verify_link(link)
def check_links(args_obj, parser):
print("")
print("Checking links")
host = args_obj.host
# Check the home page
check_page(host, host)
# Check traits page
check_page(
host,
host+"/show_trait?trait_id=1435395_s_at&dataset=HC_M2_0606_P")
def check_packaged_js_files(args_obj, parser):
host = args_obj.host
js_files = [
# Datatables Extensions:
"/css/DataTablesExtensions/buttonsBootstrap/css/buttons.bootstrap.css",
"/js/DataTablesExtensions/buttons/js/dataTables.buttons.min.js",
"/css/DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css",
"/js/DataTablesExtensions/buttons/js/dataTables.buttons.min.js",
"/js/DataTablesExtensions/colResize/dataTables.colResize.js",
"/js/DataTablesExtensions/colReorder/js/dataTables.colReorder.js",
"/js/DataTablesExtensions/buttons/js/buttons.colVis.min.js",
"/js/DataTablesExtensions/scroller/js/scroller.dataTables.min.js",
"/js/DataTables/js/jquery.dataTables.js",
"/css/DataTablesExtensions/scroller/css/scroller.dataTables.min.css",
# Datatables plugins:
"/js/DataTablesExtensions/plugins/sorting/natural.js",
"/js/DataTablesExtensions/plugins/sorting/scientific.js",
# Other js libraries
"/js/chroma/chroma.min.js",
"/js/d3-tip/d3-tip.js",
"/js/d3js/d3.min.js",
"/js/js_alt/underscore.min.js",
"/js/nvd3/nv.d3.min.css",
"/js/qtip2/jquery.qtip.min.js",
"/js/js_alt/md5.min.js",
"/js/js_alt/jstat.min.js",
"/js/js_alt/parsley.min.js",
"/js/js_alt/timeago.min.js",
"/js/plotly/plotly.min.js",
"/js/ckeditor/ckeditor.js",
"/js/jszip/jszip.min.js",
"/js/jscolor/jscolor.js",
"/js/DataTables/js/jquery.js",
"/css/DataTables/css/jquery.dataTables.css",
"/js/colorbox/jquery.colorbox-min.js",
"/css/nouislider/nouislider.min.css",
"/js/nouislider/nouislider.js",
"/js/purescript-genome-browser/js/purescript-genetics-browser.js",
"/js/purescript-genome-browser/css/purescript-genetics-browser.css",
"/js/cytoscape/cytoscape.min.js",
"/js/cytoscape-panzoom/cytoscape-panzoom.js",
"/js/cytoscape-panzoom/cytoscape.js-panzoom.css",
"/js/cytoscape-qtip/cytoscape-qtip.js",
"/css/d3-tip/d3-tip.css",
"/js/DataTables/images/sort_asc_disabled.png",
"/js/DataTables/images/sort_desc_disabled.png",
]
print("Checking links")
for link in js_files:
verify_static_file(host+link)
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