From unknown Thu Mar 28 18:56:24 2024 X-Loop: owner@bugs.x2go.org Subject: Bug#998: Image inverted when displayed via x2go Reply-To: Toby Darling , 998@bugs.x2go.org Resent-From: Toby Darling Resent-To: x2go-dev@lists.x2go.org Resent-CC: X2Go Developers X-Loop: owner@bugs.x2go.org Resent-Date: Tue, 09 Feb 2016 17:05:01 +0000 Resent-Message-ID: Resent-Sender: owner@bugs.x2go.org X-X2Go-PR-Message: report 998 X-X2Go-PR-Package: x2goclient X-X2Go-PR-Keywords: Received: via spool by submit@bugs.x2go.org id=B.145503747319420 (code B); Tue, 09 Feb 2016 17:05:01 +0000 Received: (at submit) by bugs.x2go.org; 9 Feb 2016 17:04:33 +0000 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on ymir.das-netzwerkteam.de X-Spam-Level: X-Spam-Status: No, score=-1.9 required=3.0 tests=BAYES_00, RCVD_IN_DNSWL_BLOCKED,SPF_HELO_PASS,URIBL_BLOCKED autolearn=ham version=3.3.2 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id A8D565DA92 for ; Tue, 9 Feb 2016 18:04:31 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id XeicqIqf87Pc for ; Tue, 9 Feb 2016 18:04:31 +0100 (CET) X-Greylist: delayed 1016 seconds by postgrey-1.34 at ymir.das-netzwerkteam.de; Tue, 09 Feb 2016 18:04:31 CET Received: from ppsw-33.csi.cam.ac.uk (ppsw-33.csi.cam.ac.uk [131.111.8.133]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id 68E1A5DA91 for ; Tue, 9 Feb 2016 18:04:31 +0100 (CET) X-Cam-AntiVirus: no malware found X-Cam-ScannerInfo: http://www.cam.ac.uk/cs/email/scanner/ Received: from mail.mrc-lmb.cam.ac.uk ([131.111.85.9]:36387 helo=mail.lmb.internal) by ppsw-33.csi.cam.ac.uk (ppsw.cam.ac.uk [131.111.8.137]:25) with esmtp id 1aTBRu-000Vba-iD (Exim 4.86_36-e07b163) for submit@bugs.x2go.org (return-path ); Tue, 09 Feb 2016 16:47:34 +0000 Received: from pcterm39.lmb.internal ([10.91.192.121]) by mail.lmb.internal with esmtpsa (UNKNOWN:AES256-SHA:256) (Exim 4.72) (envelope-from ) id 1aTBRu-000iw5-Ko for submit@bugs.x2go.org; Tue, 09 Feb 2016 16:47:34 +0000 From: Toby Darling To: submit@bugs.x2go.org Organization: MRC - LMB Message-ID: <56BA1826.8030304@mrc-lmb.cam.ac.uk> Date: Tue, 9 Feb 2016 16:47:34 +0000 User-Agent: Mozilla/5.0 (X11; Linux x86_64; rv:38.0) Gecko/20100101 Thunderbird/38.5.0 MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8; format=flowed Content-Transfer-Encoding: 7bit Package: x2goclient Version: 4.0.1.4 My users have an application[1] that when run under x2go inverts the image it is displaying. There is a comparative screen shot e2boxer-inverted.png at https://drive.google.com/folderview?id=0B-6ks0UHchgjTUpxSkRwd1FLa2s&usp=sharing The window on the left is through x2go and on the right is native. (I've added the red boxes and text to clarify what appears to be random splodges.) We've reproduced this discrepancy on Scientific Linux 6.7, MacOS 10.6 and MacOS 10.9. When run natively, the image is displayed correctly. x2goserver is version 4.0.1.19 running on Scientific Linux 6.7 [1] EMAN2 from http://ncmi.bcm.tmc.edu/ncmi/software/software_details?selected_software=counter_222 The downloadable EMAN2 gzip file contains all the software required to run e2boxer.py - the program that exhibits this problem, no build or config is necessary. The sample input file Falcon_2016_02_02-09_10_45_cor.mrc is at the same link as the screen shot. Once EMAN2 is unpacked run: #-- 8< --# #!/bin/bash EMAN2DIR=/EMAN2 export EMAN2DIR export PATH=$EMAN2DIR/bin:$PATH export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$EMAN2DIR/lib export PYTHONPATH=$PYTHONPATH:$EMAN2DIR/lib echo "******************" which e2boxer.py echo "******************" e2boxer.py Falcon_2016_02_02-09_10_45_cor.mrc #-- 8< --# Many thanks for the awesome work you do keeping this software going! Cheers Toby -- Toby Darling, Scientific Computing (2N249) MRC Laboratory of Molecular Biology Francis Crick Avenue Cambridge Biomedical Campus Cambridge CB2 0QH Phone 01223 267070 From unknown Thu Mar 28 18:56:24 2024 X-Loop: owner@bugs.x2go.org Subject: Bug#998: [X2Go-Dev] Bug#998: Image inverted when displayed via x2go Reply-To: Stefan Baur , 998@bugs.x2go.org Resent-From: Stefan Baur Resent-To: x2go-dev@lists.x2go.org Resent-CC: X2Go Developers X-Loop: owner@bugs.x2go.org Resent-Date: Wed, 10 Feb 2016 16:50:01 +0000 Resent-Message-ID: Resent-Sender: owner@bugs.x2go.org X-X2Go-PR-Message: followup 998 X-X2Go-PR-Package: x2goclient X-X2Go-PR-Keywords: Received: via spool by 998-submit@bugs.x2go.org id=B998.145512271031945 (code B ref 998); Wed, 10 Feb 2016 16:50:01 +0000 Received: (at 998) by bugs.x2go.org; 10 Feb 2016 16:45:10 +0000 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on ymir.das-netzwerkteam.de X-Spam-Level: X-Spam-Status: No, score=-0.0 required=3.0 tests=BAYES_20 autolearn=ham version=3.3.2 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id A3C405DA92 for <998@bugs.x2go.org>; Wed, 10 Feb 2016 17:45:08 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id zqxvi1r7L82h for <998@bugs.x2go.org>; Wed, 10 Feb 2016 17:45:08 +0100 (CET) Received: from mout.kundenserver.de (mout.kundenserver.de [212.227.126.135]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id 485F75DA91 for <998@bugs.x2go.org>; Wed, 10 Feb 2016 17:45:08 +0100 (CET) Received: from [192.168.0.171] ([109.192.26.232]) by mrelayeu.kundenserver.de (mreue001) with ESMTPSA (Nemesis) id 0MIUYB-1aRcLc2elT-00497c; Wed, 10 Feb 2016 17:45:07 +0100 To: 998@bugs.x2go.org, toby@mrc-lmb.cam.ac.uk References: <56BA1826.8030304@mrc-lmb.cam.ac.uk> From: Stefan Baur X-Enigmail-Draft-Status: N1110 Message-ID: <56BB6912.3010602@baur-itcs.de> Date: Wed, 10 Feb 2016 17:45:06 +0100 User-Agent: Mozilla/5.0 (Windows NT 6.1; WOW64; rv:38.0) Gecko/20100101 Thunderbird/38.5.1 MIME-Version: 1.0 In-Reply-To: <56BA1826.8030304@mrc-lmb.cam.ac.uk> Content-Type: text/plain; charset=windows-1252 Content-Transfer-Encoding: 8bit X-Provags-ID: V03:K0:SUShUeUP42lQcuQjqHucJWmxTsH5flQEikrBj3yEnJqmYmOaIzx TbH6vUp6uVVnXPCUcCkVlAgtPDw+JEQv4/2cPNAPFCAMpdeZBrNgPxMX4DsG2UFscnGWOQl rtVFjgeA1tsp60O0PoiQRozTzv4Vugi5xXEvowYkWiSRStpbEbEusc6q3EYnN9nT8lV/MiH KAtx2gHNWoaZRcnXRvecg== X-UI-Out-Filterresults: notjunk:1;V01:K0:DnoFd9X70eQ=:FvGS/EC2kJ9JWDCQcoQgmP 7U8sTFHfwWIMx6Vz0aKI0ORS7l5g2l/ztBQ9S6yFvAIaGoHBz/u1ftchI+3i548OuMIy8DRwU KZgEurkOvGcs6rwtqQgH3RRN7ePoT0XV5aSM1SQDWM7/t3cHLTzOglNHrv8yJfKNBHyavHyp1 S6aDR6WVTKQGJ14Hvo1xmjlpL/yAsK+SQbieCLXQRRlDFqeLWWuEkTGcrQ8Tj61bZ7wByz7+H NEtuc8TZKBSQngGRqWUMjho2Rbyqi5kbekeDFnZqogZEDXHVe82wzSVgrrzDzjogZbA+GLL7v 8CgqzdC230uj8x01wp/MLKgW6poaHQU3iy5voB6mO+a/7zVlJabXYYvD+9KSfS2CABXN4rTb5 EfVzGNJN+/e4i70OeYWWrcWj+TloLiBporN5xBERrZsUvioPDjN86nWlTUJgiarPWzNIPuyLT TVTwcoW2xJdMFMsEsy2UH9uCAtqU+cHvsuktNedO9wplGnYPuE0PLNiJqUmPaI4M8LyiThL7J 2DFioCjolSuQeWtDE7oxQ6ktVPstRBLbLV/ydigzTYAwKHO5AqyVnPdG4Fl67sEqlMmEq3XSh pJdDvY+++gvEdky/T11+s07R2sPLDY+xCux+0kjEqVjZXE0bYmTJJJSC/zDPYSjYv1zVp65cv zfjzL/VJ4BYfgLbs7IGhkEKueVyUMHIEUPD0JJji/w/9WCmkz0r2bdifyF4njSVU5RUEc9S2D UWFQmgkBDjtPSlAK -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Am 09.02.2016 um 17:47 schrieb Toby Darling: > Toby Darling, Scientific Computing (2N249) MRC Laboratory of > Molecular Biology Francis Crick Avenue Cambridge Biomedical Campus Toby, are you aware that X2Go has several compression settings for images, and some of them are "lossy", i.e. they may show artifacts where in reality there is nothing, or show nothing where in reality there is a minuscule spot? If you're using images displayed through X2Go for clinical purposes (deciding whether a certain patient requires a surgery etc.), you should absolutely make sure that you're using a lossless compression or no compression at all, or else you might be seeing things that aren't actually there, or missing things that are there. (This isn't specific to X2Go - it's something to keep in mind with all remote desktop/remote application solutions.) For your actual bug report, it would be helpful to know if the "flipped image" (it's not color-inverted, it's mirrored along the X axis) issue only occurs with one, or with all available algorithms. X2Go also has a commercial side, where various companies - including my own - offer support contracts with guaranteed response times as well as consultancy and paid-for development work if someone wants to see a bug fixed or a new feature added in a certain time frame. What makes my company special is, IMHO: 1) I'm the current X2Go Project/Community Coordinator, so the development lead and the developers tend to listen to me. 2) As far as I know, we are the only company providing X2Go support that isn't a one-man-show. 3) We sub-contract other developers from the X2Go community on demand, so you only have one person you need to talk to - me - and you will only receive one invoice, even if the task involved several freelance or part-time X2Go developers. Our hourly rate for consultancy work and fixing issues outside of a support contract is 110 EUR. With a support contract, you get guaranteed response times (starting at 400 EUR/month for 24h response time during business hours in the CET/CEST time zone from Monday to Friday, German holidays excluded) and lower hourly rates if you buy a certain amount of hours in advance. Kind Regards, Stefan - -- BAUR-ITCS UG (haftungsbeschränkt) Geschäftsführer: Stefan Baur Eichenäckerweg 10, 89081 Ulm | Registergericht Ulm, HRB 724364 Fon/Fax 0731 40 34 66-36/-35 | USt-IdNr.: DE268653243 -----BEGIN PGP SIGNATURE----- Version: GnuPG v2 iQEcBAEBCAAGBQJWu2kSAAoJEG7d9BjNvlEZgncH/1Nv9xuLMaFJxaiCoGOY1R+z 3TsFcx7RbW32GFWiYctMAaqD1T6FcnRUIuFvjeX3cSECkqLqZHa4yeSjKV4nyZ/K f9dFsUidX8vmgs1U5hiFQi8dSvdItpSTNJ1Z7t++ECmFAqL4m714e0lUy45p0kWK ppEiaop9aErVom3uUtb/I1kj/TQjTDOz5ngIGYxvvUF2LfYmmTsgn2uHq/X2vPwL O95HEcUKCbherIvCHy3PAJpB9k/OBpWHlYZzyZgYa7wsQjKXkBq88/+WVP/BgaGT 1uG9fO1yjlvuVXrwA6g7isp2L+WqrLfwwV4PbmOyBKRCWr8IyqIrAqlCkgHh/cs= =bb71 -----END PGP SIGNATURE----- From unknown Thu Mar 28 18:56:24 2024 X-Loop: owner@bugs.x2go.org Subject: Bug#998: [X2Go-Dev] Bug#998: Image inverted when displayed via x2go Reply-To: Toby Darling , 998@bugs.x2go.org Resent-From: Toby Darling Resent-To: x2go-dev@lists.x2go.org Resent-CC: X2Go Developers X-Loop: owner@bugs.x2go.org Resent-Date: Thu, 11 Feb 2016 15:55:03 +0000 Resent-Message-ID: Resent-Sender: owner@bugs.x2go.org X-X2Go-PR-Message: followup 998 X-X2Go-PR-Package: x2goclient X-X2Go-PR-Keywords: Received: via spool by 998-submit@bugs.x2go.org id=B998.145520580823184 (code B ref 998); Thu, 11 Feb 2016 15:55:03 +0000 Received: (at 998) by bugs.x2go.org; 11 Feb 2016 15:50:08 +0000 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on ymir.das-netzwerkteam.de X-Spam-Level: X-Spam-Status: No, score=-1.9 required=3.0 tests=BAYES_00,SPF_HELO_PASS, URIBL_BLOCKED autolearn=ham version=3.3.2 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id 335D85DA93 for <998@bugs.x2go.org>; Thu, 11 Feb 2016 16:50:05 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id 8hVgEUU9iaWq for <998@bugs.x2go.org>; Thu, 11 Feb 2016 16:50:05 +0100 (CET) X-Greylist: delayed 1791 seconds by postgrey-1.34 at ymir.das-netzwerkteam.de; Thu, 11 Feb 2016 16:50:04 CET Received: from ppsw-33.csi.cam.ac.uk (ppsw-33.csi.cam.ac.uk [131.111.8.133]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id C0B565DA92 for <998@bugs.x2go.org>; Thu, 11 Feb 2016 16:50:04 +0100 (CET) X-Cam-AntiVirus: no malware found X-Cam-ScannerInfo: http://www.cam.ac.uk/cs/email/scanner/ Received: from mail.mrc-lmb.cam.ac.uk ([131.111.85.9]:33730 helo=mail.lmb.internal) by ppsw-33.csi.cam.ac.uk (ppsw.cam.ac.uk [131.111.8.137]:25) with esmtp id 1aTt2S-000nDf-hT (Exim 4.86_36-e07b163) for 998@bugs.x2go.org (return-path ); Thu, 11 Feb 2016 15:20:12 +0000 Received: from pcterm39.lmb.internal ([10.91.192.121]) by mail.lmb.internal with esmtpsa (UNKNOWN:AES256-SHA:256) (Exim 4.72) (envelope-from ) id 1aTt2S-0017Ls-AC for 998@bugs.x2go.org; Thu, 11 Feb 2016 15:20:12 +0000 To: 998@bugs.x2go.org References: <56BA1826.8030304@mrc-lmb.cam.ac.uk> <56BB6912.3010602@baur-itcs.de> From: Toby Darling Organization: MRC - LMB Message-ID: <56BCA6AC.4070506@mrc-lmb.cam.ac.uk> Date: Thu, 11 Feb 2016 15:20:12 +0000 User-Agent: Mozilla/5.0 (X11; Linux x86_64; rv:38.0) Gecko/20100101 Thunderbird/38.5.0 MIME-Version: 1.0 In-Reply-To: <56BB6912.3010602@baur-itcs.de> Content-Type: text/plain; charset=windows-1252; format=flowed Content-Transfer-Encoding: 7bit Hi Stefan Many thanks for your reply. > If you're using images displayed through X2Go for clinical purposes No worries on that score, it's just [not so] simple biology. > For your actual bug report, it would be helpful to know if the > "flipped image" (it's not color-inverted, it's mirrored along the X > axis) issue only occurs with one, or with all available algorithms. You are correct that the image inversion is is along the x-axis. The colour/shading is correct. I've not been able to fix the inversion having tried with 16m, 16m-png, 16m-rdp, 16m-tight, 8-tight, 8 and 8-png (I hope that's enough for a representative sample) What I have now found is that an earlier version of the software (EMAN2 2.0) *does* get displayed correctly through x2go. I've narrowed this further to version 2.07 is OK when displayed via x2go, while version 2.1 exhibits the inversion. http://ncmi.bcm.tmc.edu/ncmi/software/software_details?selected_software=counter_222 Cheers Toby -- Toby Darling, Scientific Computing (2N249) MRC Laboratory of Molecular Biology Francis Crick Avenue Cambridge Biomedical Campus Cambridge CB2 0QH Phone 01223 267070 From unknown Thu Mar 28 18:56:24 2024 X-Loop: owner@bugs.x2go.org Subject: Bug#998: [X2Go-Dev] Bug#998: Bug#998: Image inverted when displayed via x2go Reply-To: Mike Gabriel , 998@bugs.x2go.org Resent-From: Mike Gabriel Resent-To: x2go-dev@lists.x2go.org Resent-CC: X2Go Developers X-Loop: owner@bugs.x2go.org Resent-Date: Thu, 11 Feb 2016 21:45:02 +0000 Resent-Message-ID: Resent-Sender: owner@bugs.x2go.org X-X2Go-PR-Message: followup 998 X-X2Go-PR-Package: x2goclient X-X2Go-PR-Keywords: Received: via spool by 998-submit@bugs.x2go.org id=B998.14552270102014 (code B ref 998); Thu, 11 Feb 2016 21:45:02 +0000 Received: (at 998) by bugs.x2go.org; 11 Feb 2016 21:43:30 +0000 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on ymir.das-netzwerkteam.de X-Spam-Level: X-Spam-Status: No, score=-1.9 required=3.0 tests=BAYES_00,URIBL_BLOCKED autolearn=ham version=3.3.2 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id BEC3C3BC4A for <998@bugs.x2go.org>; Thu, 11 Feb 2016 22:43:27 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id rbdwajG8K5YH for <998@bugs.x2go.org>; Thu, 11 Feb 2016 22:43:27 +0100 (CET) Received: from freya.das-netzwerkteam.de (freya.das-netzwerkteam.de [88.198.48.199]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id 7BFDC5DA92 for <998@bugs.x2go.org>; Thu, 11 Feb 2016 22:43:27 +0100 (CET) Received: from grimnir.das-netzwerkteam.de (grimnir.das-netzwerkteam.de [78.46.204.98]) by freya.das-netzwerkteam.de (Postfix) with ESMTPS id 2F05C341E; Thu, 11 Feb 2016 22:43:27 +0100 (CET) Received: from localhost (localhost [127.0.0.1]) by grimnir.das-netzwerkteam.de (Postfix) with ESMTP id C00763C648; Thu, 11 Feb 2016 22:43:26 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at grimnir.das-netzwerkteam.de Received: from grimnir.das-netzwerkteam.de ([127.0.0.1]) by localhost (grimnir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id g2wtAof5LXFC; Thu, 11 Feb 2016 22:43:26 +0100 (CET) Received: from das-netzwerkteam.de (localhost [127.0.0.1]) by grimnir.das-netzwerkteam.de (Postfix) with ESMTPS id 5A1D03B9E3; Thu, 11 Feb 2016 22:43:26 +0100 (CET) Received: from p50815E12.dip0.t-ipconnect.de (p50815E12.dip0.t-ipconnect.de [80.129.94.18]) by mail.das-netzwerkteam.de (Horde Framework) with HTTP; Thu, 11 Feb 2016 21:43:26 +0000 Date: Thu, 11 Feb 2016 21:43:26 +0000 Message-ID: <20160211214326.Horde.4CBAOKV5j7FNwNnziYONdWl@mail.das-netzwerkteam.de> From: Mike Gabriel To: Toby Darling , 998@bugs.x2go.org References: <56BA1826.8030304@mrc-lmb.cam.ac.uk> <56BB6912.3010602@baur-itcs.de> <56BCA6AC.4070506@mrc-lmb.cam.ac.uk> In-Reply-To: <56BCA6AC.4070506@mrc-lmb.cam.ac.uk> User-Agent: Horde Application Framework 5 Accept-Language: de,en Organization: DAS-NETZWERKTEAM X-Originating-IP: 80.129.94.18 X-Remote-Browser: Mozilla/5.0 (X11; Linux x86_64; rv:38.0) Gecko/20100101 Firefox/38.0 Iceweasel/38.5.0 Content-Type: multipart/signed; boundary="=_SPGrzKJyPxYIODVMpJjOx_y"; protocol="application/pgp-signature"; micalg=pgp-sha256 MIME-Version: 1.0 This message is in MIME format and has been PGP signed. --=_SPGrzKJyPxYIODVMpJjOx_y Content-Type: text/plain; format=flowed; DelSp=Yes Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Hi Toby, On Do 11 Feb 2016 16:20:12 CET, Toby Darling wrote: > Hi Stefan > > Many thanks for your reply. > >> If you're using images displayed through X2Go for clinical purposes > > No worries on that score, it's just [not so] simple biology. > >> For your actual bug report, it would be helpful to know if the >> "flipped image" (it's not color-inverted, it's mirrored along the X >> axis) issue only occurs with one, or with all available algorithms. > > You are correct that the image inversion is is along the x-axis. The=20= =20 >=20colour/shading is correct. > > I've not been able to fix the inversion having tried with 16m,=20=20 >=2016m-png, 16m-rdp, 16m-tight, 8-tight, 8 and 8-png (I hope that's=20=20 >=20enough for a representative sample) > > What I have now found is that an earlier version of the software=20=20 >=20(EMAN2 2.0) *does* get displayed correctly through x2go. I've=20=20 >=20narrowed this further to version 2.07 is OK when displayed via x2go,=20= =20 >=20while version 2.1 exhibits the inversion. > > http://ncmi.bcm.tmc.edu/ncmi/software/software_details?selected_software= =3Dcounter_222 > > > Cheers > Toby Is the source code of the referenced software online? Is it free=20=20 software?=20If yes, there is a chance we can look at changes in that=20=20 software. Also,=20does the software dynamically link in shared libraries? Or has=20= =20 it=20been built statically? I guess that there is a flaw in nx-libs that gets triggered by your=20=20 application.=20If we could generate diffs of the different EMAN2 2.0=20=20 versions,=20we might be able to track down the cause for the mirroring=20= =20 effect. Mike --=20 DAS-NETZWERKTEAM mike gabriel, herweg 7, 24357 fleckeby fon: +49 (1520) 1976 148 GnuPG Key ID 0x25771B31 mail: mike.gabriel@das-netzwerkteam.de, http://das-netzwerkteam.de freeBusy: https://mail.das-netzwerkteam.de/mailxchange/kronolith/fb.php?u=3Dm.gabriel= %40das-netzwerkteam.de --=_SPGrzKJyPxYIODVMpJjOx_y Content-Type: application/pgp-signature Content-Description: Digitale PGP-Signatur Content-Disposition: inline -----BEGIN PGP SIGNATURE----- Version: GnuPG v2 iQIcBAABCAAGBQJWvQB+AAoJEJr0azAldxsxMXAP/Atk1BlrAiFjlT9/NjzTD8ff lO5qvIh614dit9vNN97iR2uGgur9K5x3k+F5aa7K1ah4tN762xHya0tfjeVXJLfI 49rtHkgrgQdakyeciPUppmLyXnyIJEDspFZAJVV7xw/Xk6yo+Ndflw6qSuX6CJgL K1C3bnu8y4Xb/Uv7g+U8gtlupQ3sE4eTU8AXYWyh/fsUZXvwTV0ZFn/T9vwrDe3V rNQ0I6uGK88SIJha0xCdHhh1C0jaUHOiDbtSGmYAt3eB3nqxam1oW9BsBWvoUDcH fov5xBdD/2k/zA9k1PuW8KgUbzfaCg1AXmWokWknyCXY5I74rAvBwCcrPtA535hM fT8vC/JUdevvidm96B25/AEHCTkyxBJ+asx9emvXcTrcEHdjkncBe7rnfvPlGw4q Rf2oP4drbeJ5iBCr7gP1Sb/Ti+nFbqFwaTel+twhjwInoGQ8PW8+/ybQMTSUoSvH gJRiXW/hfWXBxeVPma3Cu/YvTNn1fe9XGecwgT90Xkt5DQxlLlGpY2AsbPUBlTy7 /YY64kZdUqYOfx2qCN2iHbTHY7B57npP2eaNXe6RyYfppo2Q3JqpWXz76hpUyFxF Jb6Aj2hPWjP4RBAU08MHgD/aC0ccGwxB24RIvQ/YqRnMr7/5LJd0H4EQ3KXfRm8J s8gRluvtGho0wrEsFWyX =GVMd -----END PGP SIGNATURE----- --=_SPGrzKJyPxYIODVMpJjOx_y-- From unknown Thu Mar 28 18:56:24 2024 X-Loop: owner@bugs.x2go.org Subject: Bug#998: [X2Go-Dev] Bug#998: Bug#998: Image inverted when displayed via x2go Reply-To: Toby Darling , 998@bugs.x2go.org Resent-From: Toby Darling Resent-To: x2go-dev@lists.x2go.org Resent-CC: X2Go Developers X-Loop: owner@bugs.x2go.org Resent-Date: Fri, 12 Feb 2016 08:25:02 +0000 Resent-Message-ID: Resent-Sender: owner@bugs.x2go.org X-X2Go-PR-Message: followup 998 X-X2Go-PR-Package: x2goclient X-X2Go-PR-Keywords: Received: via spool by 998-submit@bugs.x2go.org id=B998.145526531328279 (code B ref 998); Fri, 12 Feb 2016 08:25:02 +0000 Received: (at 998) by bugs.x2go.org; 12 Feb 2016 08:21:53 +0000 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on ymir.das-netzwerkteam.de X-Spam-Level: X-Spam-Status: No, score=-1.9 required=3.0 tests=BAYES_00,SPF_HELO_PASS, URIBL_BLOCKED autolearn=ham version=3.3.2 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id 43D5E5DA93 for <998@bugs.x2go.org>; Fri, 12 Feb 2016 09:21:51 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id uaSjgW+Qkaa7 for <998@bugs.x2go.org>; Fri, 12 Feb 2016 09:21:51 +0100 (CET) Received: from ppsw-32.csi.cam.ac.uk (ppsw-32.csi.cam.ac.uk [131.111.8.132]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id 105AD5DA92 for <998@bugs.x2go.org>; Fri, 12 Feb 2016 09:21:50 +0100 (CET) X-Cam-AntiVirus: no malware found X-Cam-ScannerInfo: http://www.cam.ac.uk/cs/email/scanner/ Received: from mail.mrc-lmb.cam.ac.uk ([131.111.85.9]:62117 helo=mail.lmb.internal) by ppsw-32.csi.cam.ac.uk (ppsw.cam.ac.uk [131.111.8.136]:25) with esmtp id 1aU8z8-000FXg-0k (Exim 4.86_36-e07b163) (return-path ); Fri, 12 Feb 2016 08:21:50 +0000 Received: from pcterm39.lmb.internal ([10.91.192.121]) by mail.lmb.internal with esmtpsa (UNKNOWN:AES256-SHA:256) (Exim 4.72) (envelope-from ) id 1aU8z8-0014bS-4o; Fri, 12 Feb 2016 08:21:50 +0000 To: Mike Gabriel , 998@bugs.x2go.org References: <56BA1826.8030304@mrc-lmb.cam.ac.uk> <56BB6912.3010602@baur-itcs.de> <56BCA6AC.4070506@mrc-lmb.cam.ac.uk> <20160211214326.Horde.4CBAOKV5j7FNwNnziYONdWl@mail.das-netzwerkteam.de> From: Toby Darling Organization: MRC - LMB Message-ID: <56BD961D.1060406@mrc-lmb.cam.ac.uk> Date: Fri, 12 Feb 2016 08:21:49 +0000 User-Agent: Mozilla/5.0 (X11; Linux x86_64; rv:38.0) Gecko/20100101 Thunderbird/38.5.0 MIME-Version: 1.0 In-Reply-To: <20160211214326.Horde.4CBAOKV5j7FNwNnziYONdWl@mail.das-netzwerkteam.de> Content-Type: text/plain; charset=windows-1252; format=flowed Content-Transfer-Encoding: 7bit Hi Mike >>> For your actual bug report, it would be helpful to know if the >>> "flipped image" (it's not color-inverted, it's mirrored along the X >>> axis) issue only occurs with one, or with all available algorithms. >> >> You are correct that the image inversion is is along the x-axis. The >> colour/shading is correct. >> >> I've not been able to fix the inversion having tried with 16m, >> 16m-png, 16m-rdp, 16m-tight, 8-tight, 8 and 8-png (I hope that's >> enough for a representative sample) >> >> What I have now found is that an earlier version of the software >> (EMAN2 2.0) *does* get displayed correctly through x2go. I've narrowed >> this further to version 2.07 is OK when displayed via x2go, while >> version 2.1 exhibits the inversion. >> >> http://ncmi.bcm.tmc.edu/ncmi/software/software_details?selected_software=counter_222 >> >> >> >> Cheers >> Toby > > Is the source code of the referenced software online? Is it free > software? If yes, there is a chance we can look at changes in that > software. Fortunately, it is. 2.1 : http://ncmi.bcm.edu/ncmi/software/counter_222/software_129 2.07: http://ncmi.bcm.edu/ncmi/software/counter_222/software_122 > Also, does the software dynamically link in shared libraries? Or has it > been built statically? It's all python code and it ships with its own python 2.7.x > I guess that there is a flaw in nx-libs that gets triggered by your > application. If we could generate diffs of the different EMAN2 2.0 > versions, we might be able to track down the cause for the mirroring > effect. I did have a look, unfortunately, my python-fu is weak. I do notice that the python version went from 2.7.2 -> 2.7.3. Cheers Toby -- Toby Darling, Scientific Computing (2N249) MRC Laboratory of Molecular Biology Francis Crick Avenue Cambridge Biomedical Campus Cambridge CB2 0QH Phone 01223 267070 From unknown Thu Mar 28 18:56:24 2024 X-Loop: owner@bugs.x2go.org Subject: Bug#998: Shipment delivery problem #00656439 Reply-To: "FedEx International Economy" , 998@bugs.x2go.org Resent-From: "FedEx International Economy" Resent-To: x2go-dev@lists.x2go.org Resent-CC: X2Go Developers X-Loop: owner@bugs.x2go.org Resent-Date: Wed, 16 Nov 2016 13:30:01 +0000 Resent-Message-ID: Resent-Sender: owner@bugs.x2go.org X-X2Go-PR-Message: followup 998 X-X2Go-PR-Package: x2goclient X-X2Go-PR-Keywords: Received: via spool by 998-submit@bugs.x2go.org id=B998.147930294823195 (code B ref 998); Wed, 16 Nov 2016 13:30:01 +0000 Received: (at 998) by bugs.x2go.org; 16 Nov 2016 13:29:08 +0000 X-Spam-Checker-Version: SpamAssassin 3.3.2 (2011-06-06) on ymir.das-netzwerkteam.de X-Spam-Level: * X-Spam-Status: No, score=1.3 required=3.0 tests=BAYES_50,RCVD_IN_SORBS_SPAM autolearn=no version=3.3.2 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id A947F3CBB6 for <998@bugs.x2go.org>; Wed, 16 Nov 2016 14:29:07 +0100 (CET) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id CCdcWkbBIYAO for <998@bugs.x2go.org>; Wed, 16 Nov 2016 14:29:01 +0100 (CET) Received: from p3nlsmtpcp01-03.prod.phx3.secureserver.net (p3nlsmtpcp01-03.prod.phx3.secureserver.net [184.168.200.142]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id 8AD993CBB5 for <998@bugs.x2go.org>; Wed, 16 Nov 2016 14:29:00 +0100 (CET) Received: from p3plcpnl0820.prod.phx3.secureserver.net ([50.62.177.133]) by : HOSTING RELAY : with SMTP id 70FqcIz33HYFW70FqcjKN5; Wed, 16 Nov 2016 06:27:58 -0700 Received: from lleonhardt1979 by p3plcpnl0820.prod.phx3.secureserver.net with local (Exim 4.87) (envelope-from ) id 1c70Fq-0004qB-DH for 998@bugs.x2go.org; Wed, 16 Nov 2016 06:27:58 -0700 To: 998@bugs.x2go.org X-PHP-Script: squishedpixel.com/post.php for 79.170.40.49 Date: Wed, 16 Nov 2016 13:27:58 +0000 From: "FedEx International Economy" Message-ID: X-Priority: 3 MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="b1_889978b4d84fb5713b4bde4737b34337" Content-Transfer-Encoding: 8bit X-AntiAbuse: This header was added to track abuse, please include it with any abuse report X-AntiAbuse: Primary Hostname - p3plcpnl0820.prod.phx3.secureserver.net X-AntiAbuse: Original Domain - bugs.x2go.org X-AntiAbuse: Originator/Caller UID/GID - [982033 964] / [47 12] X-AntiAbuse: Sender Address Domain - p3plcpnl0820.prod.phx3.secureserver.net X-Get-Message-Sender-Via: p3plcpnl0820.prod.phx3.secureserver.net: authenticated_id: lleonhardt1979/from_h X-Authenticated-Sender: p3plcpnl0820.prod.phx3.secureserver.net: billy.orr@squishedpixel.com X-Source: X-Source-Args: /usr/sbin/proxyexec -q -d -s /var/lib/proxyexec/cagefs.sock/socket /bin/cagefs.server X-Source-Dir: squishedpixel.com:/public_html X-CMAE-Envelope: MS4wfHYpxRezy2WhNmemc7hhEYQzCGKMfluqOj58/fsVJq3IirQgNLQ07t63NyaccdpDHb2TqRlr3q48xM3Wgo9X8Ifl4VyYN/iG8K1p5WUZwTmXZIqGjEre mAVkOauI7wdo4Stm+PRHl3goU75pbTgBah+g+muK31VgUuKuPdIcWCNrohaVQJ13pvdHmNJbeAt18/eJMG3IsLUr+J8z4ClGt4m15US31npCcWDEsUn1ba0s 7M1cVBaKLCUJYL1abfnB2w== --b1_889978b4d84fb5713b4bde4737b34337 Content-Type: text/plain; charset=us-ascii Dear Customer, Your parcel has arrived at November 15. 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X-X2Go-PR-Keywords: Received: via spool by 998-submit@bugs.x2go.org id=B998.150049862019947 (code B ref 998); Wed, 19 Jul 2017 21:10:21 +0000 Received: (at 998) by bugs.x2go.org; 19 Jul 2017 21:10:20 +0000 X-Spam-Checker-Version: SpamAssassin 3.4.1 (2015-04-28) on ymir.das-netzwerkteam.de X-Spam-Level: X-Spam-Status: No, score=-1.5 required=3.0 tests=BAYES_50,RCVD_IN_MSPIKE_H2, RCVD_IN_SORBS_SPAM autolearn=ham autolearn_force=no version=3.4.1 Received: from localhost (localhost [127.0.0.1]) by ymir.das-netzwerkteam.de (Postfix) with ESMTP id 723E15DA8C for <998@bugs.x2go.org>; Wed, 19 Jul 2017 23:10:18 +0200 (CEST) X-Virus-Scanned: Debian amavisd-new at ymir.das-netzwerkteam.de Received: from ymir.das-netzwerkteam.de ([127.0.0.1]) by localhost (ymir.das-netzwerkteam.de [127.0.0.1]) (amavisd-new, port 10024) with ESMTP id RigYqMOBj16T for <998@bugs.x2go.org>; Wed, 19 Jul 2017 23:10:13 +0200 (CEST) Received: from mout.kundenserver.de (mout.kundenserver.de [212.227.126.130]) by ymir.das-netzwerkteam.de (Postfix) with ESMTPS id F18275DA4C for <998@bugs.x2go.org>; Wed, 19 Jul 2017 23:10:12 +0200 (CEST) Received: from infong-fr25.kundenserver.de (infong-fr25.clienthosting.fr [217.72.198.208]) by mrelayeu.kundenserver.de (node=mreue007) with ESMTP (Nemesis) id 0M6c88-1dseTQ0gHE-00wY1V; Wed, 19 Jul 2017 23:10:12 +0200 Received: from 198.71.235.68 (IP may be forged by CGI script) by infong-fr25.kundenserver.de with HTTP id 1K11vv-1dfCCn0Lu1-011BjF; Wed, 19 Jul 2017 23:10:12 +0200 X-Sender-Info: <465294245@infong-fr25.kundenserver.de> From: CGI-Mailer Message-Id: <1K11vv-1dfCCn0Lu1-011BjF@infong-fr25.kundenserver.de> Precedence: bulk To: 998@bugs.x2go.org Date: Wed, 19 Jul 2017 23:10:12 +0200 Content-Type: multipart/mixed; boundary="bound1_0af8e59c98d8c197b2672d68050e35c9" Content-Transfer-Encoding: 8bit X-Provags-ID: V02:K0:fIZFoLk7GVrD/iTvb0wb6UyzoK8Mf57oYYxmyV66HdJ 1yUutTAcvQEn0LGnQEM7YU3SZM333iyd7UCoJgyCJKWdozvThl 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Please check delivery label attached! 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