From greg@bx.psu.edu Tue Dec 4 10:39:11 2012 From: Greg Von Kuster To: galaxy-dev@lists.galaxyproject.org Subject: Re: [galaxy-dev] Main toolshed broken?? Date: Tue, 04 Dec 2012 10:39:08 -0500 Message-ID: In-Reply-To: MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="===============5181856503105003072==" --===============5181856503105003072== Content-Type: text/plain; charset="utf-8" Content-Transfer-Encoding: quoted-printable Hi Franco, The server error is thrown when your file named tool_data_table_conf.xml.samp= le is parsed. The content of this file is the following. value, dbkey, name, path
value, name, path
This is an invalid xml file because it requires a containing tag set= since multiple tag sets are defined. =20 I've improved the current server error behavior by displaying an appropriate = error message for this problem, but the fix will not make it out to the main = Galaxy tool shed until the next Galaxy release, currently scheduled for about= December 20. In the meantime, I believe you should see better behavior if you upload a new= version of this file to your repository that looks something like this:
value, dbkey, name, path
value, name, path
Thanks, Greg Von Kuster On Dec 3, 2012, at 6:40 PM, Franco Caramia wrote: > Hi list,=20 >=20 > Trying to upload, delete, update files from a repository I own in the tools= hed I keep getting Server Error.. >=20 > This is the repo: http://fcaramia(a)toolshed.g2.bx.psu.edu/repos/fcaramia/m= ethylation_analysis_bismark >=20 > Is anyone having the same issues?? I could just delete the repository but n= o option for that is given..=20 >=20 > Thanks,=20 >=20 > Franco > This email (including any attachments or links) may contain confidential an= d/or legally privileged information and is intended only to be read or used b= y the addressee. If you are not the intended addressee, any use, distribution= , disclosure or copying of this email is strictly prohibited. Confidentiality= and legal privilege attached to this email (including any attachments) are n= ot waived or lost by reason of its mistaken delivery to you. If you have rece= ived this email in error, please delete it and notify us immediately by telep= hone or email. Peter MacCallum Cancer Centre provides no guarantee that this = transmission is free of virus or that it has not been intercepted or altered = and will not be liable for any delay in its receipt. > ___________________________________________________________ > 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: >=20 > http://lists.bx.psu.edu/ --===============5181856503105003072== Content-Type: text/html Content-Transfer-Encoding: base64 Content-Disposition: attachment; filename="attachment.htm" MIME-Version: 1.0 PGh0bWw+PGhlYWQ+PC9oZWFkPjxib2R5IHN0eWxlPSJ3b3JkLXdyYXA6IGJyZWFrLXdvcmQ7IC13 ZWJraXQtbmJzcC1tb2RlOiBzcGFjZTsgLXdlYmtpdC1saW5lLWJyZWFrOiBhZnRlci13aGl0ZS1z cGFjZTsgIj5IaSBGcmFuY28sPGRpdj48YnI+PC9kaXY+PGRpdj5UaGUgc2VydmVyIGVycm9yIGlz IHRocm93biB3aGVuIHlvdXIgZmlsZSBuYW1lZCB0b29sX2RhdGFfdGFibGVfY29uZi54bWwuc2Ft cGxlIGlzIHBhcnNlZC4gJm5ic3A7VGhlIGNvbnRlbnQgb2YgdGhpcyBmaWxlIGlzIHRoZSBmb2xs b3dpbmcuPC9kaXY+PGRpdj48YnI+PC9kaXY+PGRpdj48ZGl2PiZuYnNwOyZsdDshLS0gTG9jYXRp b25zIG9mIGluZGV4ZXMgaW4gdGhlIGJpc3VscGhpdGUgY29udmVyc2lvbiAtLSZndDs8L2Rpdj48 ZGl2PiZsdDt0YWJsZSBuYW1lPSJiaXNtYXJrX2luZGV4ZXMiIGNvbW1lbnRfY2hhcj0iIyImZ3Q7 PC9kaXY+PGRpdj48c3BhbiBjbGFzcz0iQXBwbGUtdGFiLXNwYW4iIHN0eWxlPSJ3aGl0ZS1zcGFj 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