New release : display problem
Hi there, I am using my own Galaxy instance and since I updated, I can't see file of several datatypes (for example the 'tabular' ) clicking on the eye icon. Is that a problem linked to the new release ? Cheers, Mathieu Bahin
Mathieu, To clarify -- is this after the new galaxy-dist release, or new code in galaxy-central? And, is this *any* tabular file? Or just ones of a particular size? (Files of > 50 columns are handled as a special case, for instance) -Dannon On Wed, Feb 13, 2013 at 11:29 AM, Mathieu Bahin <mathieu.bahin@irisa.fr>wrote:
Hi there,
I am using my own Galaxy instance and since I updated, I can't see file of several datatypes (for example the 'tabular') clicking on the eye icon.
Is that a problem linked to the new release ?
Cheers, Mathieu Bahin
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
Hi, Thanks for the answer. It is after the new galaxy-dist release and if a type is affected, all its children types are too. For example the tabular but that's not the only one. It's is not a question of size I think because very small datasets are not displayed neither. Cheers, Mathieu ----- Mail original -----
De: "Dannon Baker" <dannon.baker@gmail.com> À: "Mathieu Bahin" <mathieu.bahin@irisa.fr> Cc: galaxy-dev@lists.bx.psu.edu Envoyé: Jeudi 14 Février 2013 00:55:46 Objet: Re: [galaxy-dev] New release : display problem
Mathieu,
To clarify -- is this after the new galaxy-dist release, or new code in galaxy-central? And, is this *any* tabular file? Or just ones of a particular size? (Files of > 50 columns are handled as a special case, for instance)
-Dannon
On Wed, Feb 13, 2013 at 11:29 AM, Mathieu Bahin < mathieu.bahin@irisa.fr > wrote:
Hi there,
I am using my own Galaxy instance and since I updated, I can't see file of several datatypes (for example the 'tabular') clicking on the eye icon.
Is that a problem linked to the new release ?
Cheers,
Mathieu Bahin
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
Could you share with me a file that reproduces this behavior? I'm unable to do so on a fresh -dist clone after trying various files and file types. Do you see any errors in the console or galaxy log when this happens? On Thu, Feb 14, 2013 at 2:34 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi,
Thanks for the answer.
It is after the new galaxy-dist release and if a type is affected, all its children types are too. For example the tabular but that's not the only one. It's is not a question of size I think because very small datasets are not displayed neither.
Cheers, Mathieu
________________________________
De: "Dannon Baker" <dannon.baker@gmail.com> À: "Mathieu Bahin" <mathieu.bahin@irisa.fr> Cc: galaxy-dev@lists.bx.psu.edu Envoyé: Jeudi 14 Février 2013 00:55:46 Objet: Re: [galaxy-dev] New release : display problem
Mathieu,
To clarify -- is this after the new galaxy-dist release, or new code in galaxy-central? And, is this *any* tabular file? Or just ones of a particular size? (Files of > 50 columns are handled as a special case, for instance)
-Dannon
On Wed, Feb 13, 2013 at 11:29 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi there,
I am using my own Galaxy instance and since I updated, I can't see file of several datatypes (for example the 'tabular') clicking on the eye icon.
Is that a problem linked to the new release ?
Cheers, Mathieu Bahin
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
On Thu, Feb 14, 2013 at 11:01 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Could you share with me a file that reproduces this behavior? I'm unable to do so on a fresh -dist clone after trying various files and file types.
Do you see any errors in the console or galaxy log when this happens?
I'm seeing the same behavior when using Chrome but no when using Firefox. Just in case I deleted all cookies related to galaxy in Chrome and that didn't fix the problem this time. I don't see any errors in paster.log when this happens. Regards, Carlos
Hi, Enclosed is a dataset that I am not able to see anymore. I don't see any error in the log (but maybe I missed it !). To answer to Carlos, I have the problem with Firefox and Chrome. Cheers, Mathieu ----- Mail original -----
De: "Dannon Baker" <dannon.baker@gmail.com> À: "Mathieu Bahin" <mathieu.bahin@irisa.fr> Cc: galaxy-dev@lists.bx.psu.edu Envoyé: Jeudi 14 Février 2013 17:01:02 Objet: Re: [galaxy-dev] New release : display problem
Could you share with me a file that reproduces this behavior? I'm unable to do so on a fresh -dist clone after trying various files and file types.
Do you see any errors in the console or galaxy log when this happens?
On Thu, Feb 14, 2013 at 2:34 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi,
Thanks for the answer.
It is after the new galaxy-dist release and if a type is affected, all its children types are too. For example the tabular but that's not the only one. It's is not a question of size I think because very small datasets are not displayed neither.
Cheers, Mathieu
________________________________
De: "Dannon Baker" <dannon.baker@gmail.com> À: "Mathieu Bahin" <mathieu.bahin@irisa.fr> Cc: galaxy-dev@lists.bx.psu.edu Envoyé: Jeudi 14 Février 2013 00:55:46 Objet: Re: [galaxy-dev] New release : display problem
Mathieu,
To clarify -- is this after the new galaxy-dist release, or new code in galaxy-central? And, is this *any* tabular file? Or just ones of a particular size? (Files of > 50 columns are handled as a special case, for instance)
-Dannon
On Wed, Feb 13, 2013 at 11:29 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi there,
I am using my own Galaxy instance and since I updated, I can't see file of several datatypes (for example the 'tabular') clicking on the eye icon.
Is that a problem linked to the new release ?
Cheers, Mathieu Bahin
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
Well, (un)fortunately this file works for me in both firefox and chrome on the current galaxy-dist. Just to confirm -- when you click the eye, it doesn't download the file either, right -- nothing at all happens? In chrome, could you open the console (Tools -> Javascript Console or Ctrl+Shift+J) and then try again, letting me know if there are any errors that show up? On Fri, Feb 15, 2013 at 3:32 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi,
Enclosed is a dataset that I am not able to see anymore. I don't see any error in the log (but maybe I missed it !).
To answer to Carlos, I have the problem with Firefox and Chrome.
Cheers, Mathieu
----- Mail original -----
De: "Dannon Baker" <dannon.baker@gmail.com> À: "Mathieu Bahin" <mathieu.bahin@irisa.fr> Cc: galaxy-dev@lists.bx.psu.edu Envoyé: Jeudi 14 Février 2013 17:01:02 Objet: Re: [galaxy-dev] New release : display problem
Could you share with me a file that reproduces this behavior? I'm unable to do so on a fresh -dist clone after trying various files and file types.
Do you see any errors in the console or galaxy log when this happens?
On Thu, Feb 14, 2013 at 2:34 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi,
Thanks for the answer.
It is after the new galaxy-dist release and if a type is affected, all its children types are too. For example the tabular but that's not the only one. It's is not a question of size I think because very small datasets are not displayed neither.
Cheers, Mathieu
________________________________
De: "Dannon Baker" <dannon.baker@gmail.com> À: "Mathieu Bahin" <mathieu.bahin@irisa.fr> Cc: galaxy-dev@lists.bx.psu.edu Envoyé: Jeudi 14 Février 2013 00:55:46 Objet: Re: [galaxy-dev] New release : display problem
Mathieu,
To clarify -- is this after the new galaxy-dist release, or new code in galaxy-central? And, is this *any* tabular file? Or just ones of a particular size? (Files of > 50 columns are handled as a special case, for instance)
-Dannon
On Wed, Feb 13, 2013 at 11:29 AM, Mathieu Bahin <mathieu.bahin@irisa.fr> wrote:
Hi there,
I am using my own Galaxy instance and since I updated, I can't see file of several datatypes (for example the 'tabular') clicking on the eye icon.
Is that a problem linked to the new release ?
Cheers, Mathieu Bahin
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
On Fri, Feb 15, 2013 at 11:08 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Well, (un)fortunately this file works for me in both firefox and chrome on the current galaxy-dist. Just to confirm -- when you click the eye, it doesn't download the file either, right -- nothing at all happens?
In chrome, could you open the console (Tools -> Javascript Console or Ctrl+Shift+J) and then try again, letting me know if there are any errors that show up?
This is the error I see in Chrome Javascript Console: "Uncaught TypeError: undefined is not a function" And this is the code around the line causing the error: // Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "8,024 lines", "name": "Join two Datasets on data 28 and data 36", "data_type": "tabular", "metadata_columns": 5, "deleted": false, "metadata_data_lines": 8024, "metadata_column_names": null, "genome_build": "build37.2", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 1569994, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["str", "float", "list", "str", "int"], "id": 110, "misc_info": "", "metadata_dbkey": "build37.2"} ); dataset.set('chunk_url', "/datasets/f30a35c999095ed7/display"); Please let me know if there is something else I can do to help solve this issue. Regards, Carlos
Hello All, I've the same problem with Firefox (it works with Chrome). With Firebug, I've got this message :
data.TabularDataset is not a constructor
Firebug shows me the same lines of code than Carlos :
// Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "33 lines", "name": "Galaxy12-[Filtered_table__Remove_columns_on_data_11].tax.summary", "data_type": "tabular", "metadata_columns": 4, "deleted": false, "metadata_data_lines": 33, "metadata_column_names": null, "genome_build": "?", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 969, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["int", "str", "str", "int"], "id": 9664, "misc_info": "uploaded tabular file", "metadata_dbkey": "?"} );
Regards, Cyril On 02/15/2013 07:09 PM, Carlos Borroto wrote:
On Fri, Feb 15, 2013 at 11:08 AM, Dannon Baker<dannon.baker@gmail.com> wrote:
Well, (un)fortunately this file works for me in both firefox and chrome on the current galaxy-dist. Just to confirm -- when you click the eye, it doesn't download the file either, right -- nothing at all happens?
In chrome, could you open the console (Tools -> Javascript Console or Ctrl+Shift+J) and then try again, letting me know if there are any errors that show up?
This is the error I see in Chrome Javascript Console: "Uncaught TypeError: undefined is not a function"
And this is the code around the line causing the error: // Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "8,024 lines", "name": "Join two Datasets on data 28 and data 36", "data_type": "tabular", "metadata_columns": 5, "deleted": false, "metadata_data_lines": 8024, "metadata_column_names": null, "genome_build": "build37.2", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 1569994, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["str", "float", "list", "str", "int"], "id": 110, "misc_info": "", "metadata_dbkey": "build37.2"} );
dataset.set('chunk_url', "/datasets/f30a35c999095ed7/display");
Please let me know if there is something else I can do to help solve this issue.
Regards, Carlos ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Cyril Monjeaud Equipe Symbiose / Plate-forme GenOuest Bureau D156 IRISA-INRIA, Campus de Beaulieu 35042 Rennes cedex, France Tél: +33 (0) 2 99 84 74 17
Clearing your browser's cache may solve the problem. Can you please try that and let us know if it solves the problem? Thanks, J. On Feb 21, 2013, at 10:55 AM, MONJEAUD wrote:
Hello All,
I've the same problem with Firefox (it works with Chrome). With Firebug, I've got this message :
data.TabularDataset is not a constructor
Firebug shows me the same lines of code than Carlos :
// Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "33 lines", "name": "Galaxy12-[Filtered_table__Remove_columns_on_data_11].tax.summary", "data_type": "tabular", "metadata_columns": 4, "deleted": false, "metadata_data_lines": 33, "metadata_column_names": null, "genome_build": "?", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 969, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["int", "str", "str", "int"], "id": 9664, "misc_info": "uploaded tabular file", "metadata_dbkey": "?"} );
Regards, Cyril
On 02/15/2013 07:09 PM, Carlos Borroto wrote:
On Fri, Feb 15, 2013 at 11:08 AM, Dannon Baker<dannon.baker@gmail.com> wrote:
Well, (un)fortunately this file works for me in both firefox and chrome on the current galaxy-dist. Just to confirm -- when you click the eye, it doesn't download the file either, right -- nothing at all happens?
In chrome, could you open the console (Tools -> Javascript Console or Ctrl+Shift+J) and then try again, letting me know if there are any errors that show up?
This is the error I see in Chrome Javascript Console: "Uncaught TypeError: undefined is not a function"
And this is the code around the line causing the error: // Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "8,024 lines", "name": "Join two Datasets on data 28 and data 36", "data_type": "tabular", "metadata_columns": 5, "deleted": false, "metadata_data_lines": 8024, "metadata_column_names": null, "genome_build": "build37.2", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 1569994, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["str", "float", "list", "str", "int"], "id": 110, "misc_info": "", "metadata_dbkey": "build37.2"} );
dataset.set('chunk_url', "/datasets/f30a35c999095ed7/display");
Please let me know if there is something else I can do to help solve this issue.
Regards, Carlos ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
--
Cyril Monjeaud Equipe Symbiose / Plate-forme GenOuest Bureau D156 IRISA-INRIA, Campus de Beaulieu 35042 Rennes cedex, France Tél: +33 (0) 2 99 84 74 17
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
Hi Jeremy, In my case the error went away by itself. Maybe at one point a did a force reload (CTRL-SHIFT-R) I can't remember. I do think a cache issue could be the culprit here, I normally use Chrome and only go to Firefox when something is not working, Firefox would not have seen this content before, so no cached content there. Best, Carlos On Thu, Feb 21, 2013 at 11:04 AM, Jeremy Goecks <jeremy.goecks@emory.edu> wrote:
Clearing your browser's cache may solve the problem. Can you please try that and let us know if it solves the problem?
Thanks, J.
On Feb 21, 2013, at 10:55 AM, MONJEAUD wrote:
Hello All,
I've the same problem with Firefox (it works with Chrome). With Firebug, I've got this message :
data.TabularDataset is not a constructor
Firebug shows me the same lines of code than Carlos :
// Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "33 lines", "name": "Galaxy12-[Filtered_table__Remove_columns_on_data_11].tax.summary", "data_type": "tabular", "metadata_columns": 4, "deleted": false, "metadata_data_lines": 33, "metadata_column_names": null, "genome_build": "?", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 969, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["int", "str", "str", "int"], "id": 9664, "misc_info": "uploaded tabular file", "metadata_dbkey": "?"} );
Regards, Cyril
On 02/15/2013 07:09 PM, Carlos Borroto wrote:
On Fri, Feb 15, 2013 at 11:08 AM, Dannon Baker<dannon.baker@gmail.com> wrote:
Well, (un)fortunately this file works for me in both firefox and chrome on the current galaxy-dist. Just to confirm -- when you click the eye, it doesn't download the file either, right -- nothing at all happens?
In chrome, could you open the console (Tools -> Javascript Console or Ctrl+Shift+J) and then try again, letting me know if there are any errors that show up?
This is the error I see in Chrome Javascript Console: "Uncaught TypeError: undefined is not a function"
And this is the code around the line causing the error: // Set up dataset and attributes. var dataset = new data.TabularDataset( {"misc_blurb": "8,024 lines", "name": "Join two Datasets on data 28 and data 36", "data_type": "tabular", "metadata_columns": 5, "deleted": false, "metadata_data_lines": 8024, "metadata_column_names": null, "genome_build": "build37.2", "purged": false, "visible": true, "state": "ok", "metadata_comment_lines": null, "file_size": 1569994, "model_class": "HistoryDatasetAssociation", "metadata_column_types": ["str", "float", "list", "str", "int"], "id": 110, "misc_info": "", "metadata_dbkey": "build37.2"} );
dataset.set('chunk_url', "/datasets/f30a35c999095ed7/display");
Please let me know if there is something else I can do to help solve this issue.
Regards, Carlos ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
--
Cyril Monjeaud Equipe Symbiose / Plate-forme GenOuest Bureau D156 IRISA-INRIA, Campus de Beaulieu 35042 Rennes cedex, France Tél: +33 (0) 2 99 84 74 17
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
participants (5)
-
Carlos Borroto -
Dannon Baker -
Jeremy Goecks -
Mathieu Bahin -
MONJEAUD