From william_v_nicholson at yahoo.com Wed Oct 3 15:06:24 2018 From: william_v_nicholson at yahoo.com (William Nicholson) Date: Wed, 3 Oct 2018 13:06:24 +0000 (UTC) Subject: [Inparanoid] problem with XML link on search query result page References: <1365450852.4020920.1538571984025.ref@mail.yahoo.com> Message-ID: <1365450852.4020920.1538571984025@mail.yahoo.com> I recently did a gene search on the InParanoid website (e.g. try "LACB").  Then I followed the "Cluster" link for the most relevant protein (e.g. try the row with protein ID A7EBU5).  If I follow the "XML" link I get an internal server error: " Internal Server Error The server encountered an internal error or misconfiguration and was unable to complete your request. Please contact the server administrator, root at localhost and inform them of the time the error occurred, and anything you might have done that may have caused the error. More information about this error may be available in the server error log. ________________________________ Apache/2.2.15 (CentOS) Server at inparanoid.sbc.su.se Port 80" I can't find anyway to contact the server administrator as per the instructions apart from using this mailing list, William Nicholson From Nicolas.Thierry-Mieg at univ-grenoble-alpes.fr Wed Oct 3 15:15:29 2018 From: Nicolas.Thierry-Mieg at univ-grenoble-alpes.fr (Nicolas Thierry-Mieg) Date: Wed, 3 Oct 2018 15:15:29 +0200 Subject: [Inparanoid] problem with XML link on search query result page In-Reply-To: <1365450852.4020920.1538571984025@mail.yahoo.com> References: <1365450852.4020920.1538571984025.ref@mail.yahoo.com> <1365450852.4020920.1538571984025@mail.yahoo.com> Message-ID: <7ed79440-048f-08a3-e3ba-311799af1eb9@univ-grenoble-alpes.fr> On 10/03/2018 03:06 PM, William Nicholson wrote: > I recently did a gene search on the InParanoid website (e.g. try "LACB").  Then I followed the "Cluster" link for the most relevant protein (e.g. try the row with protein ID A7EBU5).  If I follow the "XML" link I get an internal server error: > > " Internal Server Error > The server encountered an internal error or misconfiguration and was unable to complete your request. > Please contact the server administrator, root at localhost and inform them of the time the error occurred, and anything you might have done that may have caused the error. > More information about this error may be available in the server error log. > ________________________________ > Apache/2.2.15 (CentOS) Server at inparanoid.sbc.su.se Port 80" > > I can't find anyway to contact the server administrator as per the instructions apart from using this mailing list, > > William Nicholson Hi, I reported this a year ago: https://lists.su.se/pipermail/inparanoid-at-sbc.su.se/2017-October/000133.html I didn't get any replies and XML output is still broken, so I suggest you work around this (eg download and parse the full XML files) or use another tool. Regards From william_v_nicholson at yahoo.com Wed Oct 3 15:37:10 2018 From: william_v_nicholson at yahoo.com (William Nicholson) Date: Wed, 3 Oct 2018 13:37:10 +0000 (UTC) Subject: [Inparanoid] link for stand-alone InParanoid program is broken References: <1210456376.4067935.1538573830384.ref@mail.yahoo.com> Message-ID: <1210456376.4067935.1538573830384@mail.yahoo.com> The link for stand-alone InParanoid program is broken on the webpage at http://inparanoid.sbc.su.se/cgi-bin/index.cgi .  When I follow the link to download the program I get the following error message on Google Chrome: "This page isn’t working software.sbc.su.se didn’t send any data. ERR_EMPTY_RESPONSE" William Nicholson From erik.sonnhammer at scilifelab.se Thu Oct 11 14:17:25 2018 From: erik.sonnhammer at scilifelab.se (Erik Sonnhammer) Date: Thu, 11 Oct 2018 14:17:25 +0200 Subject: [Inparanoid] problem with XML link on search query result page In-Reply-To: <7ed79440-048f-08a3-e3ba-311799af1eb9@univ-grenoble-alpes.fr> References: <1365450852.4020920.1538571984025.ref@mail.yahoo.com> <1365450852.4020920.1538571984025@mail.yahoo.com> <7ed79440-048f-08a3-e3ba-311799af1eb9@univ-grenoble-alpes.fr> Message-ID: <736a8ff5-a584-17f2-b3e9-264728b1d2a9@scilifelab.se> Dear Nicolas and William, thanks for reporting this bug and apologies for the slow response.  But the good news is that it has now been fixed. Best wishes Erik Sonnhammer On 2018-10-03 15:15, Nicolas Thierry-Mieg wrote: > > > On 10/03/2018 03:06 PM, William Nicholson wrote: >> I recently did a gene search on the InParanoid website (e.g. try >> "LACB").  Then I followed the "Cluster" link for the most relevant >> protein (e.g. try the row with protein ID A7EBU5).  If I follow the >> "XML" link I get an internal server error: >> >> " Internal Server Error >> The server encountered an internal error or misconfiguration and was >> unable to complete your request. >> Please contact the server administrator, root at localhost and inform >> them of the time the error occurred, and anything you might have done >> that may have caused the error. >> More information about this error may be available in the server >> error log. >> ________________________________ >> Apache/2.2.15 (CentOS) Server at inparanoid.sbc.su.se Port 80" >> >> I can't find anyway to contact the server administrator as per the >> instructions apart from using this mailing list, >> >> William Nicholson > > Hi, > I reported this a year ago: > https://lists.su.se/pipermail/inparanoid-at-sbc.su.se/2017-October/000133.html > > > I didn't get any replies and XML output is still broken, so I suggest > you work around this (eg download and parse the full XML files) or use > another tool. > > Regards > _______________________________________________ > InParanoid-at-sbc.su.se mailing list > InParanoid-at-sbc.su.se at lists.su.se > https://lists.su.se/mailman/listinfo/inparanoid-at-sbc.su.se From jyl at njau.edu.cn Tue Oct 23 09:08:18 2018 From: jyl at njau.edu.cn (=?UTF-8?B?5YiY6YeR5LmJ?=) Date: Tue, 23 Oct 2018 15:08:18 +0800 (GMT+08:00) Subject: [Inparanoid] Ask for the sample data {4 BLAST files(EC-SC, SC-EC, SC-SC, EC-EC)} Message-ID: <2ff7c4ba.3eb1.1669fc0b624.Coremail.jyl@njau.edu.cn> Dear InParanoid tean I am currently trying to use InParanoid 4.1, but I can not run it even for the demo data, and I found there sre some sample data missing from the package you sent to me, which is 4 BLAST files(EC-SC, SC-EC, SC-SC, EC-EC). I will appreciate it very much if you can send the data to me. thank you so much! Best regards! Jinyi Liu Nanjing Agricultural University -------------- next part -------------- An HTML attachment was scrubbed... URL: