From franceschin.giulia at gmail.com Tue Dec 23 12:49:06 2025 From: franceschin.giulia at gmail.com (Giulia Franceschin) Date: Tue, 23 Dec 2025 11:49:06 +0100 Subject: [Cod-bugs] Issue Accessing COD Database Website Message-ID: Dear Administrator, I am trying to access the COD database through your website, but the link does not appear to be responding or loading correctly. I have attempted to access it at different times and from different browsers, but the issue persists. Could you please let me know if the database is currently available, or if there is an alternative way to access it? If any special permissions, login credentials, or updated links are required, I would appreciate your guidance. Thank you very much for your time and assistance. I look forward to your response. Best regards, Dr. Giulia Franceschin -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: From antanas.vaitkus90 at gmail.com Tue Dec 23 15:26:52 2025 From: antanas.vaitkus90 at gmail.com (Antanas Vaitkus) Date: Tue, 23 Dec 2025 15:26:52 +0200 Subject: [Cod-bugs] Issue Accessing COD Database Website In-Reply-To: References: Message-ID: Dear Giulia, the COD is currently undergoing some technical difficulties and it is not yet clear when the full functionality will be restored. In the meantime, you can access the data in the following COD mirror: https://qiserver.ugr.es/cod/ Please note, that you will not be able to commit your data until the main COD server is restored. Sincerely, Antanas On Tue, 23 Dec 2025 at 12:50, Giulia Franceschin < franceschin.giulia at gmail.com> wrote: > Dear Administrator, > > I am trying to access the COD database through your website, but the link > does not appear to be responding or loading correctly. I have attempted to > access it at different times and from different browsers, but the issue > persists. > > Could you please let me know if the database is currently available, or if > there is an alternative way to access it? If any special permissions, login > credentials, or updated links are required, I would appreciate your > guidance. > > Thank you very much for your time and assistance. I look forward to your > response. > > Best regards, > > Dr. Giulia Franceschin > > -- > This message has been scanned for viruses and > dangerous content by *MailScanner* , and is > believed to be clean. _______________________________________________ > Cod-bugs mailing list > Cod-bugs at lists.crystallography.net > http://lists.crystallography.net/cgi-bin/mailman/listinfo/cod-bugs > -- Antanas Vaitkus, Vilnius University, Life Sciences Center, Institute of Biotechnology, room C521, Saul?tekio al. 7, LT-10257 Vilnius, Lithuania -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: From ohnishi.yusuke.corefc at osaka-u.ac.jp Thu Dec 25 06:43:55 2025 From: ohnishi.yusuke.corefc at osaka-u.ac.jp (ohnishi.yusuke.corefc at osaka-u.ac.jp) Date: Thu, 25 Dec 2025 04:43:55 +0000 Subject: [Cod-bugs] We cannot connect to COD In-Reply-To: References: Message-ID: Dear Dr. Saulius, this is Ohnishi, who previously inquired about the deposition. If it still looks like it will take some time to restore the COD, could you please manually perform the deposition for the attached file? Please let me know if any information is missing. I apologize for the inconvenience, but I would appreciate your assistance. All the best, Ohnishi ????? (Ohnishi Yusuke) The University of Osaka Core Facility Center Specially Appointed Assistant Professor I-405, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan Tel: 06-6879-4815 Email: ohnishi.yusuke.corefc at osaka-u.ac.jp ________________________________ ???: ????? ????: 2025?12?17? 9:40 ??: Saulius Gra?ulis ; cod-bugs at lists.crystallography.net ??: Re: [Cod-bugs] We cannot connect to COD Dear Dr. Saulius thank you for your reply. I apologize for taking up your time while you're busy with the recovery. I will upload the data after the recovery is complete. Best regards, Ohnishi ????? (Ohnishi Yusuke) The University of Osaka Core Facility Center Specially Appointed Assistant Professor I-405, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan Tel: 06-6879-4815 Email: ohnishi.yusuke.corefc at osaka-u.ac.jp ________________________________ ???: Saulius Gra?ulis ????: 2025?12?16? 16:23 ??: ????? ; cod-bugs at lists.crystallography.net ??: Re: [Cod-bugs] We cannot connect to COD Dear Ohnishi, thank you for your e-mail. You are right, we experienced a server overload and a subsequent disk crash related to a large number of simultaneous bot requests. We are now busy restoring the COD server and loading data from backups, which, unfortunately, might take a couple of days. If the deposition is urgent please sent you files to us via e-mail and I will handle them manually. I apologise for this inconvenience. Sincerely yours, Saulius On 2025-12-16 02:49, ohnishi.yusuke.corefc at osaka-u.ac.jp wrote: Dear COD support, I am Yusuke Ohnishi at the University of Osaka, Japan. I haven't been able to connect to the COD website since last Friday. Is there some kind of trouble going on? I have a file I would like to deposit to COD. If it takes a while to resolve, I'd like to deposit it via email if possible. I apologize for the trouble, but I appreciate your help. Best regards, Ohnishi ????? (Ohnishi Yusuke) The University of Osaka Core Facility Center Specially Appointed Assistant Professor I-405, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan Tel: 06-6879-4815 Email: ohnishi.yusuke.corefc at osaka-u.ac.jp -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. _______________________________________________ Cod-bugs mailing list Cod-bugs at lists.crystallography.net http://lists.crystallography.net/cgi-bin/mailman/listinfo/cod-bugs -- Dr. Saulius Gra?ulis Vilnius University Institute of Biotechnology, Saul?tekio al. 7 LT-10257 Vilnius, Lietuva (Lithuania) mobile: (+370-684)-49802, (+370-614)-36366 -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: olex_CuComplex_shelxl4_abin_rem_restrainsH_shel_mod.cif Type: application/octet-stream Size: 17014104 bytes Desc: olex_CuComplex_shelxl4_abin_rem_restrainsH_shel_mod.cif URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: olex_cucomplex_shelxl4_abin_rem_restrainsh_shel.fcf Type: application/octet-stream Size: 2225556 bytes Desc: olex_cucomplex_shelxl4_abin_rem_restrainsh_shel.fcf URL: From ohnishi.yusuke.corefc at osaka-u.ac.jp Thu Dec 25 06:47:39 2025 From: ohnishi.yusuke.corefc at osaka-u.ac.jp (ohnishi.yusuke.corefc at osaka-u.ac.jp) Date: Thu, 25 Dec 2025 04:47:39 +0000 Subject: [Cod-bugs] We cannot connect to COD In-Reply-To: References: Message-ID: Dear Dr. Saulius, this is Ohnishi, who previously inquired about the deposition. If it still looks like it will take some time to restore the COD, could you please manually perform the deposition for the attached files? 1 CIF file and 1 corresponding FCF file are included. Please let me know if any information is missing. I apologize for the inconvenience, but I would appreciate your assistance. All the best, Ohnishi ????? (Ohnishi Yusuke) The University of Osaka Core Facility Center Specially Appointed Assistant Professor I-405, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan Tel: 06-6879-4815 Email: ohnishi.yusuke.corefc at osaka-u.ac.jp ________________________________ ???: ????? ????: 2025?12?17? 9:40 ??: Saulius Gra?ulis ; cod-bugs at lists.crystallography.net ??: Re: [Cod-bugs] We cannot connect to COD Dear Dr. Saulius thank you for your reply. I apologize for taking up your time while you're busy with the recovery. I will upload the data after the recovery is complete. Best regards, Ohnishi ????? (Ohnishi Yusuke) The University of Osaka Core Facility Center Specially Appointed Assistant Professor I-405, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan Tel: 06-6879-4815 Email: ohnishi.yusuke.corefc at osaka-u.ac.jp ________________________________ ???: Saulius Gra?ulis ????: 2025?12?16? 16:23 ??: ????? ; cod-bugs at lists.crystallography.net ??: Re: [Cod-bugs] We cannot connect to COD Dear Ohnishi, thank you for your e-mail. You are right, we experienced a server overload and a subsequent disk crash related to a large number of simultaneous bot requests. We are now busy restoring the COD server and loading data from backups, which, unfortunately, might take a couple of days. If the deposition is urgent please sent you files to us via e-mail and I will handle them manually. I apologise for this inconvenience. Sincerely yours, Saulius On 2025-12-16 02:49, ohnishi.yusuke.corefc at osaka-u.ac.jp wrote: Dear COD support, I am Yusuke Ohnishi at the University of Osaka, Japan. I haven't been able to connect to the COD website since last Friday. Is there some kind of trouble going on? I have a file I would like to deposit to COD. If it takes a while to resolve, I'd like to deposit it via email if possible. I apologize for the trouble, but I appreciate your help. Best regards, Ohnishi ????? (Ohnishi Yusuke) The University of Osaka Core Facility Center Specially Appointed Assistant Professor I-405, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan Tel: 06-6879-4815 Email: ohnishi.yusuke.corefc at osaka-u.ac.jp -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. _______________________________________________ Cod-bugs mailing list Cod-bugs at lists.crystallography.net http://lists.crystallography.net/cgi-bin/mailman/listinfo/cod-bugs -- Dr. Saulius Gra?ulis Vilnius University Institute of Biotechnology, Saul?tekio al. 7 LT-10257 Vilnius, Lietuva (Lithuania) mobile: (+370-684)-49802, (+370-614)-36366 -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Marc_synchrotron_COD_deposition.zip Type: application/x-zip-compressed Size: 5049912 bytes Desc: Marc_synchrotron_COD_deposition.zip URL: From grazulis at ibt.lt Thu Dec 25 13:03:51 2025 From: grazulis at ibt.lt (=?UTF-8?Q?Saulius_Gra=C5=BEulis?=) Date: Thu, 25 Dec 2025 13:03:51 +0200 Subject: [Cod-bugs] We cannot connect to COD In-Reply-To: References: Message-ID: <3bb49abd-b063-4a02-a4fc-027fb1562ec5@ibt.lt> On 2025-12-25 06:47, ohnishi.yusuke.corefc at osaka-u.ac.jp wrote: > this is Ohnishi, who previously inquired about the deposition. > If it still looks like it will take some time to restore the?COD, > could you please manually perform the deposition for the attached files? > 1 CIF file and 1 corresponding FCF file are included. > Please let me know if any information is missing. > > I apologize for the inconvenience, but I would appreciate your assistance. Thank you for your letter and for the files, I'll deposit them. The server is being restored, I'm right now getting data on it. Sincerely yours, Saulius -- Dr. Saulius Gra?ulis Vilnius University Institute of Biotechnology, Saul?tekio al. 7 LT-10257 Vilnius, Lietuva (Lithuania) mobile: (+370-684)-49802, (+370-614)-36366 -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: From giselapetri123 at gmail.com Sat Dec 27 01:21:53 2025 From: giselapetri123 at gmail.com (Gisela Petri) Date: Fri, 26 Dec 2025 19:21:53 -0400 Subject: [Cod-bugs] Request for COD New Release File for HighScore (Plus) Message-ID: Dear Crystallography Open Database Team, My name is Gisela Montenegro Petri. I am currently working with XRD data interpretation using the HighScore (Plus) software. However, I have been unable to download the COD New Release from your website for any year ? when I click on ?new release?, the link returns ?not found?. Because of this issue, I am unable to properly configure the database in HighScore (Plus). I would like to kindly ask if you could provide me with the .HSRDB file (or the ZIP package) containing the latest COD New Release, so that I can import it into the software and continue my analysis. I rely on this database to perform my interpretations, so any help would be greatly appreciated. Thank you very much in advance for your support. I look forward to your response. Best regards, *Gisela Montenegro Petri* -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: From grazulis at ibt.lt Sat Dec 27 10:36:56 2025 From: grazulis at ibt.lt (=?UTF-8?Q?Saulius_Gra=C5=BEulis?=) Date: Sat, 27 Dec 2025 10:36:56 +0200 Subject: [Cod-bugs] Request for COD New Release File for HighScore (Plus) In-Reply-To: References: Message-ID: Dear Gisela, thank you for your bug report! On 2025-12-27 01:21, Gisela Petri wrote: > Dear Crystallography Open Database Team, > > My name is Gisela Montenegro Petri. I am currently working with XRD > data interpretation using the HighScore (Plus) software. However, I > have been unable to download the COD New Release from your website for > any year ? when I click on ?new release?, the link returns ?not found?. > I have fixed the link, and now the HighScore archives are visible from my machines. Could you please try again and let me know if it works on your side? Sincerely, Saulius > Because of this issue, I am unable to properly configure the database > in HighScore (Plus). I would like to kindly ask if you could provide > me with the .HSRDB file (or the ZIP package) containing the latest COD > New Release, so that I can import it into the software and continue my > analysis. > > I rely on this database to perform my interpretations, so any help > would be greatly appreciated. > > Thank you very much in advance for your support. > I look forward to your response. > > Best regards, > > *Gisela Montenegro Petri* > > > > -- > This message has been scanned for viruses and > dangerous content by *MailScanner* , and is > believed to be clean. > > _______________________________________________ > Cod-bugs mailing list > Cod-bugs at lists.crystallography.net > http://lists.crystallography.net/cgi-bin/mailman/listinfo/cod-bugs -- Dr. Saulius Gra?ulis Vilnius University Institute of Biotechnology, Saul?tekio al. 7 LT-10257 Vilnius, Lietuva (Lithuania) mobile: (+370-684)-49802, (+370-614)-36366 -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: From cdsbb at stfc.ac.uk Sat Dec 27 11:36:52 2025 From: cdsbb at stfc.ac.uk (cdsbb at stfc.ac.uk) Date: Sat, 27 Dec 2025 09:36:52 +0000 Subject: [Cod-bugs] Request for COD New Release File for HighScore (Plus) In-Reply-To: References: Message-ID: Dear Gisela The CrystalWorks server at Daresbury does not support The HighScore software. But hopefully our colleagues at the cod-bugs helpdesk can help you with your query. Best Regards Bob McMeeking STFC Daresbury Laboratory Sent from Outlook for Android ________________________________ From: Gisela Petri Sent: Friday, December 26, 2025 11:21:53 PM To: CDSBB ; cod-bugs at ibt.lt Subject: Request for COD New Release File for HighScore (Plus) Dear Crystallography Open Database Team, My name is Gisela Montenegro Petri. I am currently working with XRD data interpretation using the HighScore (Plus) software. However, I have been unable to download the COD New Release from your website for any year ? when I click on ?new release?, the link returns ?not found?. Because of this issue, I am unable to properly configure the database in HighScore (Plus). I would like to kindly ask if you could provide me with the .HSRDB file (or the ZIP package) containing the latest COD New Release, so that I can import it into the software and continue my analysis. I rely on this database to perform my interpretations, so any help would be greatly appreciated. Thank you very much in advance for your support. I look forward to your response. Best regards, Gisela Montenegro Petri -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... URL: From grazulis at ibt.lt Sat Dec 27 11:42:52 2025 From: grazulis at ibt.lt (=?UTF-8?Q?Saulius_Gra=C5=BEulis?=) Date: Sat, 27 Dec 2025 11:42:52 +0200 Subject: [Cod-bugs] Request for COD New Release File for HighScore (Plus) In-Reply-To: References: Message-ID: Hi, Bob, thanks for the support! I've fixed the COD archive links this morning and wrote Gisela. Hopefully it will work for her as well. Regards, Saulius PS. The COD server is now working read-only with the structure collection 1 month old, and the test COD server is working r/w. I'm now recovering the remaining recordsm hopefully will finish it today or tomorrow (depends on our network transfer rates ;). Unfortunately, some revision number might change in the process (but on the COD IDs). I'll let yo and everyone know when the recovery is finished. Regards, Saulius On 2025-12-27 11:36, cdsbb at stfc.ac.uk wrote: > Dear Gisela > > The CrystalWorks server at Daresbury does not support > ?The HighScore software. But hopefully our colleagues at the cod-bugs > helpdesk can help you with your query. > > Best Regards > > Bob McMeeking > STFC Daresbury Laboratory > Sent from Outlook for Android > ------------------------------------------------------------------------ > *From:* Gisela Petri > *Sent:* Friday, December 26, 2025 11:21:53 PM > *To:* CDSBB ; cod-bugs at ibt.lt > *Subject:* Request for COD New Release File for HighScore (Plus) > Dear Crystallography Open Database Team, > > My name is Gisela Montenegro Petri. I am currently working with XRD > data interpretation using the HighScore (Plus) software. However, I > have been unable to download the COD New Release from your website for > any year ? when I click on ?new release?, the link returns ?not found?. > > Because of this issue, I am unable to properly configure the database > in HighScore (Plus). I would like to kindly ask if you could provide > me with the .HSRDB file (or the ZIP package) containing the latest COD > New Release, so that I can import it into the software and continue my > analysis. > > I rely on this database to perform my interpretations, so any help > would be greatly appreciated. > > Thank you very much in advance for your support. > I look forward to your response. > > Best regards, > > *Gisela Montenegro Petri* > > > > -- > This message has been scanned for viruses and > dangerous content by *MailScanner* , and is > believed to be clean. > > _______________________________________________ > Cod-bugs mailing list > Cod-bugs at lists.crystallography.net > http://lists.crystallography.net/cgi-bin/mailman/listinfo/cod-bugs -- Dr. Saulius Gra?ulis Vilnius University Institute of Biotechnology, Saul?tekio al. 7 LT-10257 Vilnius, Lietuva (Lithuania) mobile: (+370-684)-49802, (+370-614)-36366 -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean. -------------- next part -------------- An HTML attachment was scrubbed... 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