Hi, user galaxy; worker_processes 1; #error_log logs/error.log; #error_log logs/error.log notice; #error_log logs/error.log info; #pid logs/nginx.pid; error_log /var/log/nginx/error.log info; pid /var/run/nginx.pid; events { worker_connections 1024; } http { include /etc/nginx/mime.types; default_type application/octet-stream; log_format main '$remote_addr - $remote_user [$time_local] "$request" ' '$status $body_bytes_sent "$http_referer" ' '"$http_user_agent" "$http_x_forwarded_for"'; access_log /var/log/nginx/access.log main; gzip on; gzip_http_version 1.1; gzip_vary on; gzip_comp_level 4; gzip_proxied any; gzip_types text/plain text/css application/x-javascript text/xml application/xml text/javascript application/json; gzip_buffers 16 8k; gzip_disable "MSIE [1-6].(?!.*SV1)"; upstream galaxy_app { server localhost:8080; } sendfile on; #tcp_nopush on; #keepalive_timeout 0; keepalive_timeout 65; server { listen 8081 ssl; server_name localhost xxxxxxxxxxxxx:8081; client_max_body_size 50M; ssl_certificate entrustcert.crt; ssl_certificate_key server.key; #charset koi8-r; #access_log logs/host.access.log main; location / { proxy_pass http://galaxy_app; proxy_set_header X-Forwarded-Host $host:$server_port; proxy_set_header X-Forwarded-For $proxy_add_x_forwarded_for; proxy_set_header X-URL-SCHEME https; } location /static { alias /BigData/galaxy/galaxy-dist/static; expires 24h; } location /static/style { alias /BigData/galaxy/galaxy-dist/static/june_2007_style/blue; expires 24h; } location /static/scripts { alias /BigData/galaxy/galaxy-dist/static/scripts/packed; } location /favicon.ico { alias /BigData/galaxy/galaxy_dist/static/favicon.ico; } location /robots.txt { alias /BigData/galaxy/galaxy-dist/static/robots.txt; } location /_x_accel_redirect/ { internal; alias /; } location /_upload { upload_max_output_body_len 0; upload_store /BigData/galaxy/galaxy-dist/database/tmp/upload_store; upload_pass_form_field ""; upload_set_form_field "__${upload_field_name}__is_composite" "true"; upload_set_form_field "__${upload_field_name}__keys" "name path"; upload_set_form_field "${upload_field_name}_name" "$upload_file_name"; upload_set_form_field "${upload_field_name}_path" "$upload_tmp_path"; upload_pass_args on; upload_pass /_upload_done; } location /_upload_done { set $dst /api/tools; if ($args ~ nginx_redir=([^&]+)) { set $dst $1; } rewrite "" $dst; } -Sheldon -----Original Message----- From: John Chilton [mailto:jmchilton@gmail.com] Sent: Friday, February 20, 2015 2:30 PM To: Briand, Sheldon Cc: galaxy-dev@lists.bx.psu.edu Dev Subject: Re: [galaxy-dev] (no subject) I am not sure what the problem is - any chance you can share your nginx configuration file? On Fri, Feb 20, 2015 at 1:13 PM, Briand, Sheldon <Sheldon.Briand@ssc-spc.gc.ca> wrote:

Hi,

I’m seeing the following error when trying to use upload file with a local file that is larger than 8Kb:

galaxy.web.framework.decorators ERROR 2015-02-19 16:51:48,280 Uncaught exception in exposed API method:

Traceback (most recent call last):

File "/BigData/galaxy/galaxy-dist/lib/galaxy/web/framework/decorators.py", line 135, in decorator

rval = func( self, trans, *args, **kwargs)

File "/BigData/galaxy/galaxy-dist/lib/galaxy/webapps/galaxy/api/tools.py", line 124, in create

tool = trans.app.toolbox.get_tool( payload[ 'tool_id' ] ) if 'tool_id' in payload else None

File "/BigData/galaxy/galaxy-dist/lib/galaxy/tools/__init__.py", line 448, in get_tool

if tool_id in self.tools_by_id and not get_all_versions:

TypeError: unhashable type: 'list'

The end of the file in the upload store:

GGTGGATCACAAGGTCAGGAGATCGAGACCATCCTGGTTAACATGATGAAACCCCGTGTCTACTAAAAAT

ACAAAAAA-----------------------------206772567414653

Content-Disposition: form-data; name="history_id"

Null

I’m using nginx 1.6.2 with the upload_file module and the latest stable version of galaxy.

What am I messing up?

Thanks,

-Sheldon

Sheldon Briand

NRC Research Computing Support Analyst / Operations, Science Portfolio

Shared Services Canada / Government of Canada

sheldon.briand@ssc-spc.gc.ca / Tel: 902-426-1677

CNRC Analyst de Support Informatique de Recherche/ Operations, Portefeuil des sciences

Services partagés Canada /Gouvernement du Canada

sheldon.briand@ssc-spc.gc.ca / Tél: 902-426-1677

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