Error 404s and missing LDs in WSGI based apache2 webserver #162
Comments
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Can you post the apache error log?
…On Tue, Mar 23, 2021 at 05:05 eikematthias ***@***.***> wrote:
Disclaimer: This is my first bug report and webserver.
Steps to reproduce:
pheweb v. 1.3.9
config.py:
hg_build_number=38
num_procs=4
1.
I prepared a locally running pheweb browser. All features work fine
with pheweb serve --port 500. Shut it down afterwards.
2.
Creating a wsgi token via pheweb wsgi
3.
Install apache2 and libapache2-mod-wsgi-py3 via apt install; sudo
a2enmod wsgi
4.
Modify /etc/apache2/sites-available/000-default.conf to:
<VirtualHost *:5000>
ServerName localhost
DocumentRoot /home/sukmb465
WSGIScriptAlias / /home/sukmb465/Documents/pheweb38/generated-by-pheweb/wsgi.py
WSGIDaemonProcess pheweb user=sukmb465 group=sukmb465 processes=1 threads=1
WSGIProcessGroup pheweb
<Directory />
Require all granted
</Directory>
LogLevel warn
ErrorLog ${APACHE_LOG_DIR}/pheweb_error.log
CustomLog ${APACHE_LOG_DIR}/pheweb_access.log combined
1.
make apache2 listen to port 5000 by adding in /etc/apache2/ports.conf:
Listen 5000
2.
sudo systemctl restart apache2
3.
looking into localhost:5000 -> Phenotypes -> clicking on any 'Nearest
Gene(s)' produces a Error 404.
[image: image]
<https://user-images.githubusercontent.com/71607460/112121017-0d1dc000-8bbf-11eb-8938-b7616e074b49.png>
4.
LDs dont work at all
Thanks!
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I forgot to mention, this is on Ubuntu 20.10. |
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Oh, I see. Python in your You've got two options: Option 1: Instead of using wsgi, just run Option 2: Add these lines to your I'd like to know if those lines work to fix your bug (so I can update https://github.com/statgen/pheweb/blob/master/pheweb/load/wsgi.py), but I recommend using |
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Thank you for your help! Option 2 works, fixing both issues I had! Though a new Issue came up: The search does not find any matches except for phenotypes. Any queries will be answered with 500 Internal Server Error. My webserver-machine gives following log with: Option1 was my bandaid-approach in the meanwhile, though the search box did not work completely, so you always had to wait for the autocompletion to be done to select the correct gene/SNP, if not and you hit impatiently enter after your search input, the clients browser starts to look at your clients localhost:5000, with, of course, no answer to be expected. |
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I just released version 1.3.12 which fixes the sqlite3 threading issue (I think– I haven't tested it threaded) and uses relative URLs for the 302 redirects (so that you won't get I'm looking into why the autocomplete is so slow. |
Thanks for all the detailed descriptions. You've been really helpful, and it's great to have these issues solved. |
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Autocomplete is fast in version 1.3.13. Thanks for getting me to finally fix that. 👍 You can re-open this issue if it's not actually fixed, but I'm closing it for now. |
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Disclaimer: This is my first bug report and webserver.
Steps to reproduce:
pheweb v. 1.3.9
config.py:
hg_build_number=38
num_procs=4
I prepared a locally running pheweb browser. All features work fine with pheweb serve --port 5000. Shut it down afterwards.
Creating a wsgi token via pheweb wsgi
Install apache2 and libapache2-mod-wsgi-py3 via apt install; sudo a2enmod wsgi
Modify /etc/apache2/sites-available/000-default.conf to:
<VirtualHost *:5000>
ServerName localhost
DocumentRoot /home/sukmb465
make apache2 listen to port 5000 by adding in /etc/apache2/ports.conf:
Listen 5000
sudo systemctl restart apache2
looking into localhost:5000 -> Phenotypes -> clicking on any 'Nearest Gene(s)' produces a Error 404.
LDs dont work at all
Thanks!
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