Question: Cannot access the Galaxy Server Page
0
gravatar for dfleming
9 days ago by
dfleming0
dfleming0 wrote:

I cannot maintain access to the Galaxy user site for some unknown reason. It keeps dropping my connection and giving me the following message:

"Cannot connect to Galaxy

Galaxy is currently unreachable. Please try again in a few minutes. Please contact a Galaxy administrator if the problem persists."

However, there is no way to "contact an administrator" and the problem persists daily and at best I get 3-4 hrs of using galaxy before I get the message. I have tried multiple browsers, but nothing helps. Is there a fix to this?

software error galaxy • 61 views
ADD COMMENTlink modified 14 hours ago by Dannon Baker3.6k • written 9 days ago by dfleming0

It would be helpful if a Galaxy administrator actually followed up on this persistent problem.

ADD REPLYlink written 1 day ago by dfleming0

Are you seeing this currently? What galaxy server are you using?

ADD REPLYlink written 1 day ago by Dannon Baker3.6k

yes. https://usegalaxy.org/

ADD REPLYlink written 1 day ago by dfleming0

I just checked and we don't see any issues with connectivity on usegalaxy.org right now. Would you like for me to check your account and see if there's something weird going on with your account in particular?

Are you familiar with the debug console in your web browser? Can you open that, refresh the page, and let me know what shows up?

ADD REPLYlink written 1 day ago by Dannon Baker3.6k

Yes. This is what I see in the console:

JQMIGRATE: Migrate is installed with logging active, version 1.4.0 jquery.js:10208 Synchronous XMLHttpRequest on the main thread is deprecated because of its detrimental effects to the end user's experience. For more help, check https://xhr.spec.whatwg.org/.

ADD REPLYlink written 1 day ago by dfleming0

This is the only message in the console when the error modal pops up? What exactly are you doing when this happens?

ADD REPLYlink written 1 day ago by Dannon Baker3.6k

Then:

list-view.js:118 n {length: 0, models: Array(0), _byId: Object, order: "hid", comparator: function…} Object {readyState: 4, getResponseHeader: function, getAllResponseHeaders: function, setRequestHeader: function, overrideMimeType: function…} Object {parse: true, silent: true, limit: 500, offset: 0, details: "bbd44e69cb8906b53c83ae2790e84101,bbd44e69cb8906b50…dee0ec75cb2e9fd1,bbd44e69cb8906b55604c0903d9627c6"…} undefined undefined error @ list-view.js:118 y @ backbone.js:372 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 error @ list-view.js:153 y @ backbone.js:371 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 e.error @ backbone.js:1915 o.error @ backbone.js:1439 l @ jquery.js:3232 fireWith @ jquery.js:3362 n @ jquery.js:9842 e @ jquery.js:10311 jquery.js:10254 GET https://usegalaxy.org/api/histories/9aca573591085293/contents?keys=type_id%…r=hid&v=dev&q=history_content_type&q=visible&qv=dataset_collection&qv=True 502 (Bad Gateway) send @ jquery.js:10254 ajax @ jquery.js:9738 e.ajax @ backbone.js:1460 e.sync @ backbone.js:1443 sync @ backbone.js:798 fetch @ backbone.js:1055 fetch @ controlled-fetch-collection.js:34 fetch @ history-contents.js:203 fetchCollectionCounts @ history-contents.js:305 (anonymous) @ history-view.js:109 (anonymous) @ underscore.js:768 list-view.js:118 n {length: 0, models: Array(0), _byId: Object, order: "hid", comparator: function…} Object {readyState: 4, getResponseHeader: function, getAllResponseHeaders: function, setRequestHeader: function, overrideMimeType: function…} Object {parse: true, keys: "type_id,element_count", filters: Object, remove: false, details: "bbd44e69cb8906b53c83ae2790e84101,bbd44e69cb8906b50…dee0ec75cb2e9fd1,bbd44e69cb8906b55604c0903d9627c6"…} undefined undefined error @ list-view.js:118 y @ backbone.js:372 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 error @ list-view.js:153 y @ backbone.js:371 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 e.error @ backbone.js:1915 o.error @ backbone.js:1439 l @ jquery.js:3232 fireWith @ jquery.js:3362 n @ jquery.js:9842 e @ jquery.js:10311 jquery.js:10254 GET https://usegalaxy.org/api/histories/9aca573591085293/contents?details=bbd44…03d9627c6&order=hid&v=dev&q=update_time-ge&qv=2017-04-27T14%3A59%3A07.561Z 502 (Bad Gateway) send @ jquery.js:10254 ajax @ jquery.js:9738 e.ajax @ backbone.js:1460 e.sync @ backbone.js:1443 sync @ backbone.js:798 fetch @ backbone.js:1055 fetch @ controlled-fetch-collection.js:34 fetch @ history-contents.js:203 fetchUpdated @ history-contents.js:256 n @ history-model.js:181 refresh @ history-model.js:183 (anonymous) @ history-model.js:206 list-view.js:118 n {length: 0, models: Array(0), _byId: Object, order: "hid", comparator: function…} Object {readyState: 4, getResponseHeader: function, getAllResponseHeaders: function, setRequestHeader: function, overrideMimeType: function…} Object {parse: true, filters: Object, remove: false, details: "bbd44e69cb8906b53c83ae2790e84101,bbd44e69cb8906b50…dee0ec75cb2e9fd1,bbd44e69cb8906b55604c0903d9627c6", traditional: true…} undefined undefined

ADD REPLYlink written 1 day ago by dfleming0

Ok, it looks like there's a problem with your particular history regarding fetching collection contents. Were you trying to view a collection when this failed?

ADD REPLYlink written 1 day ago by Dannon Baker3.6k

Due to the site restrictions for posting I was unable to reply to this question until now. The issue occurs regardless of any action (refresh page, click on tool, etc). At this point I cannot reach any of my data files and no fix has been applied. Because I am severely limited in the number of questions/responses I can make and the fact that this issue has been occurring for more than a week, I would like the following to be provided:

  • access to retrieve all of the Hisat bam files No fixes from my end have worked and I need to be able to recover the data ASAP.
ADD REPLYlink written 1 day ago by dfleming0

Due to the site restrictions for posting I was unable to reply to this question until now. The issue occurs regardless of any action (refresh page, click on tool, etc). At this point I cannot reach any of my data files and no fix has been applied. Because I am severely limited in the number of questions/responses I can make and the fact that this issue has been occurring for more than a week, I would like the following to be provided:

access to retrieve all of the Hisat bam files No fixes from my end have worked and I need to be able to recover the data ASAP. Because this is the first of 5 messages I'm allowed please provide a means to reach you with additional questions/responses.

ADD REPLYlink written 18 hours ago by dfleming0

You can always report a bug at the mailing list https://lists.galaxyproject.org/listinfo/galaxy-bugs

ADD REPLYlink modified 15 hours ago • written 15 hours ago by Martin Čech ♦♦ 3.8k
0
gravatar for Martin Čech
15 hours ago by
Martin Čech ♦♦ 3.8k
United States
Martin Čech ♦♦ 3.8k wrote:

I impersonated your account and I can see your histories and datasets without a problem. This (together with nobody else reporting it) would point at a problem with either your browser or your network.

What browser are you using? Do you have problems accessing other websites? Could you please share a screenshot of your javascript console? What are you doing when this error happens? Does it happen even if you do not log in?

ADD COMMENTlink modified 15 hours ago • written 15 hours ago by Martin Čech ♦♦ 3.8k

he error happens no matter what I do. As of 1:22pm CST I have access again, but as I mentioned in the original post this happens daily and I can only maintain access for at best 3-4 hrs before the situation repeats itself. I have included the previous console log below (as there is no way to screenshot it now)

list-view.js:118 n {length: 0, models: Array(0), _byId: Object, order: "hid", comparator: function…} Object {readyState: 4, getResponseHeader: function, getAllResponseHeaders: function, setRequestHeader: function, overrideMimeType: function…} Object {parse: true, silent: true, limit: 500, offset: 0, details: "bbd44e69cb8906b53c83ae2790e84101,bbd44e69cb8906b50…dee0ec75cb2e9fd1,bbd44e69cb8906b55604c0903d9627c6"…} undefined undefined error @ list-view.js:118 y @ backbone.js:372 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 error @ list-view.js:153 y @ backbone.js:371 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 e.error @ backbone.js:1915 o.error @ backbone.js:1439 l @ jquery.js:3232 fireWith @ jquery.js:3362 n @ jquery.js:9842 e @ jquery.js:10311 jquery.js:10254 GET https://usegalaxy.org/api/histories/9aca573591085293/contents?keys=type_id%…r=hid&v=dev&q=history_content_type&q=visible&qv=dataset_collection&qv=True 502 (Bad Gateway) send @ jquery.js:10254 ajax @ jquery.js:9738 e.ajax @ backbone.js:1460 e.sync @ backbone.js:1443 sync @ backbone.js:798 fetch @ backbone.js:1055 fetch @ controlled-fetch-collection.js:34 fetch @ history-contents.js:203 fetchCollectionCounts @ history-contents.js:305 (anonymous) @ history-view.js:109 (anonymous) @ underscore.js:768 list-view.js:118 n {length: 0, models: Array(0), _byId: Object, order: "hid", comparator: function…} Object {readyState: 4, getResponseHeader: function, getAllResponseHeaders: function, setRequestHeader: function, overrideMimeType: function…} Object {parse: true, keys: "type_id,element_count", filters: Object, remove: false, details: "bbd44e69cb8906b53c83ae2790e84101,bbd44e69cb8906b50…dee0ec75cb2e9fd1,bbd44e69cb8906b55604c0903d9627c6"…} undefined undefined error @ list-view.js:118 y @ backbone.js:372 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 error @ list-view.js:153 y @ backbone.js:371 v @ backbone.js:356 d @ backbone.js:155 h.trigger @ backbone.js:346 e.error @ backbone.js:1915 o.error @ backbone.js:1439 l @ jquery.js:3232 fireWith @ jquery.js:3362 n @ jquery.js:9842 e @ jquery.js:10311 jquery.js:10254 GET https://usegalaxy.org/api/histories/9aca573591085293/contents?details=bbd44…03d9627c6&order=hid&v=dev&q=update_time-ge&qv=2017-04-27T14%3A59%3A07.561Z 502 (Bad Gateway) send @ jquery.js:10254 ajax @ jquery.js:9738 e.ajax @ backbone.js:1460 e.sync @ backbone.js:1443 sync @ backbone.js:798 fetch @ backbone.js:1055 fetch @ controlled-fetch-collection.js:34 fetch @ history-contents.js:203 fetchUpdated @ history-contents.js:256 n @ history-model.js:181 refresh @ history-model.js:183 (anonymous) @ history-model.js:206 list-view.js:118 n {length: 0, models: Array(0), _byId: Object, order: "hid", comparator: function…} Object {readyState: 4, getResponseHeader: function, getAllResponseHeaders: function, setRequestHeader: function, overrideMimeType: function…} Object {parse: true, filters: Object, remove: false, details: "bbd44e69cb8906b53c83ae2790e84101,bbd44e69cb8906b50…dee0ec75cb2e9fd1,bbd44e69cb8906b55604c0903d9627c6", traditional: true…} undefined undefined

ADD REPLYlink written 14 hours ago by dfleming0
0
gravatar for Dannon Baker
14 hours ago by
Dannon Baker3.6k
United States
Dannon Baker3.6k wrote:

We think we have an idea as to what may have been causing your issue and have issued a fix. Can you try again now, after a full page refresh?

ADD COMMENTlink written 14 hours ago by Dannon Baker3.6k
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