def summary():
error = ''
respheaders = None
results = None
try:
results, respheaders = helpers.rxapi(f"/v1/data/summary", headers=True)
except Exception as e:
print(e)
error = f"Sorry—there was a problem retrieving the results: {e}"
bottle.response.status = 500
# Figure out the top categories:
top_cats = []
for cat in results['submissions_categorical']:
top_cats.append({
'category': cat['label'],
'count': cat['data'][-1]['count']
})
def sorter(x):
# little helper function that sorts the categories
# based on the most recent month's submissions
return x['count']
top_cats = sorted(top_cats, key=sorter, reverse=True)
stats = helpers.rxapi("/v1/data/stats")
return bottle.template('summary', results=results,
top_cats=top_cats,
error=error, stats=stats, google_tag=config.google_tag)
def display_author_details(id):
try:
get = requests.get(f"{config.rxapi}/v1/authors/{id}")
if get.status_code == 404:
raise helpers.NotFoundError(id)
# make sure the URL we ended at matches the URL we asked for:
new_id = re.search('/(\d+)$', get.url)
if new_id and len(new_id.groups()) > 0:
try:
new_id = int(new_id.group(1))
except Exception:
bottle.response.status = 500
return {"error": "Server errror."}
if new_id != id: # if we got redirected to a new URL
return bottle.redirect(f"{config.host}/authors/{new_id}", 301)
author = get.json()
except helpers.NotFoundError as e:
bottle.response.status = 404
return e.message
except ValueError as e:
bottle.response.status = 500
print(e)
return {"error": "Server error."}
distro = helpers.rxapi("/v1/data/distributions/author/downloads")
download_distribution = distro["histogram"]
averages = distro["averages"]
stats = helpers.rxapi("/v1/data/stats")
return bottle.template('author_details', author=author,
download_distribution=download_distribution, averages=averages, stats=stats,
google_tag=config.google_tag)
def topyear(year):
error = ''
respheaders = None
results = None
if year < 2013:
error = "Lists currently available only for 2013 through 2018."
bottle.response.status = 404
try:
results, respheaders = helpers.rxapi(f"/v1/top/{year}", headers=True)
except Exception as e:
print(e)
error = f"Sorry—there was a problem retrieving the results: {e}"
bottle.response.status = 500
# if respheaders is not None and "Cache-Control" in respheaders.keys():
# bottle.response.set_header("Cache-Control", respheaders["Cache-Control"])
bottle.response.set_header("Cache-Control", 'max-age=600, stale-while-revalidate=172800')
stats = helpers.rxapi("/v1/data/stats")
yearstats = { # TODO: Put this in the API
2013: {
"papers": 109,
"downloads": 17268
},
2014: {
"papers": 886,
"downloads": 311046
},
2015: {
"papers": 1774,
"downloads": 679159
},
2016: {
"papers": 4718,
"downloads": 2182836
},
2017: {
"papers": 11342,
"downloads": 3995108
},
2018: {
"papers": 20050,
"downloads": 5730324
}
}
return bottle.template('top_year', results=results['results'],
year=year, yearpapers=yearstats[year]['papers'], yeardownloads = yearstats[year]['downloads'],
error=error, stats=stats, google_tag=config.google_tag)
def build_docs():
category_list = helpers.rxapi("/v1/data/categories")[
"results"] # list of all article categories
return docmodels.Documentation("https://api.rxivist.org/v1", [
papers(category_list),
authors(category_list),
apidetails(),
])
def display_paper_details(paper_id):
try:
paper = requests.get(f"{config.rxapi}/v1/papers/{paper_id}")
except helpers.NotFoundError as e:
bottle.response.status = 404
return e.message
except ValueError as e:
bottle.response.status = 500
print(e)
return {"error": "Server error."}
# make sure the URL we ended at matches the URL we asked for:
new_id = re.search('/(\d+)$', paper.url)
if new_id and len(new_id.groups()) > 0:
try:
new_id = str(new_id.group(1))
paper_id = str(paper_id)
except Exception:
bottle.response.status = 500
return {"error": "Server error."}
if new_id != paper_id: # if we got redirected to a new URL
return bottle.redirect(f"{config.host}/papers/{new_id}", 301)
paper = paper.json()
downloads = helpers.rxapi(f"/v1/downloads/{paper_id}")["results"]
# Convert the API response into something we can pass to the generic
# template for the graph:
traffic = [{
'month': x['month'], 'year': x['year'], 'count': x['downloads']
} for x in downloads]
distro = helpers.rxapi("/v1/data/distributions/paper/downloads")
download_distribution = distro["histogram"]
averages = distro["averages"]
stats = helpers.rxapi("/v1/data/stats")
return bottle.template('paper_details', paper=paper, traffic=traffic,
download_distribution=download_distribution, averages=averages, stats=stats,
google_tag=config.google_tag)
def index():
error = ""
view = bottle.request.query.view
if view is None or view not in ["standard", "print"]:
view = "standard"
entity = bottle.request.query.entity
if entity is None or entity == "":
entity = "papers"
category_list = helpers.rxapi("/v1/data/categories")["results"]
stats = helpers.rxapi("/v1/data/stats")
results = {} # a list of articles for the current page
respheaders = None
try:
if entity == "authors":
category_filter = bottle.request.query.getall('category')
if len(category_filter) == 0:
category = ""
else:
category = category_filter[0] # just one category for author ranks for now
category_filter = [category_filter[0]]
results = helpers.rxapi(f"/v1/authors?category={category}")
elif entity == "papers":
results, respheaders = helpers.rxapi(f"/v1/papers?{bottle.request.query_string}", headers=True)
except Exception as e:
print(e)
error = f"There was a problem with the submitted query: {e}"
bottle.response.status = 500
# Take the current query string and turn it into a template that any page
# number can get plugged into:
if "page=" in bottle.request.query_string:
pagelink = "/?{}".format(re.sub(r"page=\d*", "page=", bottle.request.query_string))
else:
pagelink = f"/?{bottle.request.query_string}&page="
metric = ""
timeframe = ""
page = ""
page_size = ""
totalcount = ""
query = ""
if entity == "papers":
try:
metric = results["query"]["metric"]
timeframe = results["query"]["timeframe"]
category_filter = results["query"]["categories"]
page = results["query"]["current_page"]
page_size = results["query"]["page_size"]
totalcount = results["query"]["total_results"]
query = results["query"]["text_search"]
except Exception as e:
if "error" in results.keys():
error = results["error"]
else:
error = str(e) # TODO: this is bad
return error
results = results["results"]
# figure out the page title
if entity == "papers":
title = "Most "
if metric == "twitter":
title += "tweeted"
elif metric == "downloads":
title += "downloaded"
if query != "":
title += f" papers related to \"{query},\" "
else:
title += " bioRxiv papers, "
printable_times = {
"alltime": "all time",
"ytd": "year to date",
"lastmonth": "since beginning of last month",
"day": "last 24 hours",
"week": "last 7 days",
"month": "last 30 days",
"year": "last 365 days"
}
title += printable_times[timeframe]
elif entity == "authors":
title = "Authors with most downloads, all-time"
if bottle.request.query_string == "":
bottle.response.set_header("Cache-Control", f"max-age={config.front_page_cache}, stale-while-revalidate=172800")
# use whatever cache-control headers are sent to us from the API
if respheaders is not None and "Cache-Control" in respheaders.keys():
bottle.response.set_header("Cache-Control", respheaders["Cache-Control"])
temp = 'print' if view == "print" else 'index'
return bottle.template(temp, results=results,
query=query, category_filter=category_filter, title=title,
error=error, stats=stats, category_list=category_list, view=view,
timeframe=timeframe, metric=metric, entity=entity, google_tag=config.google_tag,
page=page, page_size=page_size, totalcount=totalcount, pagelink=pagelink,
querystring=bottle.request.query_string)
def api_docs():
stats = helpers.rxapi("/v1/data/stats")
documentation = docs.build_docs()
return bottle.template("api_docs", google_tag=config.google_tag, stats=stats, docs=documentation)
def privacy():
stats = helpers.rxapi("/v1/data/stats")
return bottle.template("newsletter", google_tag=config.google_tag, stats=stats)
def emailcode():
results, _ = helpers.rxapi(f"/v1/papers?timeframe=week&page_size=20", headers=True)
results = results["results"]
bottle.response.set_header("Cache-Control", f"max-age=0, stale-while-revalidate=0")
return bottle.template('emailtemplate', results=results)
