The biomart web server. If it's not accessible, some screenshots will help as well.
On 11-04-07 10:45 AM, "Jorge Zamora" <[email protected]> wrote: Hi Junjun, You mean the web server or the actual mart database. Thanks, Jorge Junjun Zhang wrote: > Hi Jorge, > > There is no additional installation is needed. > > From what you describe I am not quite sure what exactly the problem > with KEGG pathways. Is there any chance I can access your server? > > Thanks, > Junjun > > > On 11-04-07 5:25 AM, "Jorge Zamora" <[email protected]> wrote: > > Hi Junjun, > > I've fully installed rc5, reconfigured icgc3.xml and It makes no > difference. It seems to me that the icgc3.xml that comes with the > installation has a different configuration compared to the one > displayed > at http://dcc.icgc.org/, at least in the filter section of the > 'ANYLISIS' and 'DATABASE SEARCH'. > > Also, is there any graphic library that we should additionally install > to visualize the histograms/bars when resquesting KEGG pathways? I > just > ask this since we have set up our local ICGC mart in two independent > machines. In both cases we tell there are differences in the > configuration compared to http://dcc.icgc.org/. However one only > machine > displays KEGG pathways. That's why we're where suspecting there're > missing graphic libraries. > > Thanks, > Jorge > > > > Junjun Zhang wrote: > > Hi Jorge, > > > > We were trying to reproduce the problems at our side, but > couldn't get > > what you experienced. The problem might be caused by running > incorrect > > UPDATE. We are developing a command line UPDATE tool for ICGC > members, > > the tool will automate the operation as much as possible to minimize > > the chance of such type of errors. > > > > Best, > > Junjun > > > > > > On 11-04-05 5:35 AM, "Jorge Zamora" <[email protected]> wrote: > > > > Hello, > > > > We have realized of some differences from our local ICGC mart with > > respect to the web menu for other countries. We're using the icgc xml > > that came with rc5. Specifically we're missing the following > fields in > > the web site: > > > > - 'Gene type' and 'Mutation type' in ANALYSIS within both the > > 'Affected > > Genes' and 'Affected Pathways' sections. > > - 'Gene type' in DATABASE SEARCH within 'Genes' section. > > > > is there any extra configuration needed in martconfigurator to > display > > this information? > > > > Thanks > > Jorge > > > > **NOTA DE CONFIDENCIALIDAD** Este correo electrónico, y en su caso > > los ficheros adjuntos, pueden contener información protegida para > > el uso exclusivo de su destinatario. Se prohíbe la distribución, > > reproducción o cualquier otro tipo de transmisión por parte de > > otra persona que no sea el destinatario. Si usted recibe por error > > este correo, se ruega comunicarlo al remitente y borrar el mensaje > > recibido. > > **CONFIDENTIALITY NOTICE** This email communication and any > > attachments may contain confidential and privileged information > > for the sole use of the designated recipient named above. > > Distribution, reproduction or any other use of this transmission > > by any party other than the intended recipient is prohibited. If > > you are not the intended recipient please contact the sender and > > delete all copies. > > > > _______________________________________________ > > Users mailing list > > [email protected] > > https://lists.biomart.org/mailman/listinfo/users > > > > > **NOTA DE CONFIDENCIALIDAD** Este correo electrónico, y en su caso > los ficheros adjuntos, pueden contener información protegida para > el uso exclusivo de su destinatario. Se prohíbe la distribución, > reproducción o cualquier otro tipo de transmisión por parte de > otra persona que no sea el destinatario. Si usted recibe por error > este correo, se ruega comunicarlo al remitente y borrar el mensaje > recibido. > **CONFIDENTIALITY NOTICE** This email communication and any > attachments may contain confidential and privileged information > for the sole use of the designated recipient named above. > Distribution, reproduction or any other use of this transmission > by any party other than the intended recipient is prohibited. If > you are not the intended recipient please contact the sender and > delete all copies. > > **NOTA DE CONFIDENCIALIDAD** Este correo electrónico, y en su caso los ficheros adjuntos, pueden contener información protegida para el uso exclusivo de su destinatario. Se prohíbe la distribución, reproducción o cualquier otro tipo de transmisión por parte de otra persona que no sea el destinatario. Si usted recibe por error este correo, se ruega comunicarlo al remitente y borrar el mensaje recibido. **CONFIDENTIALITY NOTICE** This email communication and any attachments may contain confidential and privileged information for the sole use of the designated recipient named above. Distribution, reproduction or any other use of this transmission by any party other than the intended recipient is prohibited. If you are not the intended recipient please contact the sender and delete all copies.
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