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Welcome CIPRES users. This forum is for sharing questions and issues in using the CIPRES resource.
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Joon Kim
Nov 1
Possible way to purchase credit
Hi, I know purchasing credit was terminated in september but is there any possible way I can purchase
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Possible way to purchase credit
Hi, I know purchasing credit was terminated in september but is there any possible way I can purchase
Nov 1
Ziv Lieberman
Oct 27
ExaBayes not writing outputs?
Hello, I have an ExaBayes run that I started on 24 October. A 30 minute test run didn't show any
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ExaBayes not writing outputs?
Hello, I have an ExaBayes run that I started on 24 October. A 30 minute test run didn't show any
Oct 27
AMY PRICHARD
,
Mark Miller
3
Oct 22
FastTree job completed but with no results
Hi Mark, Sorry, I don't have a google account associated with my health email I used to set up my
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FastTree job completed but with no results
Hi Mark, Sorry, I don't have a google account associated with my health email I used to set up my
Oct 22
Mark Miller
Oct 1
New CIPRES feature to support data downloads
Dear CIPRES users, In view of CIPRES closure in a few months, we have added a new tool to facilitate
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New CIPRES feature to support data downloads
Dear CIPRES users, In view of CIPRES closure in a few months, we have added a new tool to facilitate
Oct 1
Mark Miller
Sep 24
Subscription service to CIPRES ending 9/30/3025
Phoenix Bioinformatics will end its partnership with CIPRES as of September 30, 2025. As a result
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Subscription service to CIPRES ending 9/30/3025
Phoenix Bioinformatics will end its partnership with CIPRES as of September 30, 2025. As a result
Sep 24
Mahmut Şen
,
Mark Miller
2
Sep 24
About membership issue
Thanks for reporting the issue, your account should be working now. SIncerely, Mark MIller On Monday,
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About membership issue
Thanks for reporting the issue, your account should be working now. SIncerely, Mark MIller On Monday,
Sep 24
Anaïs Beaumariage
, …
Pfeiffer, Wayne
3
Sep 18
Job stuck in queue without intermediate results
Correction: The maintenance is scheduled for Monday, September 22. On Sep 18, 2025, at 9:24 AM, Mark
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Job stuck in queue without intermediate results
Correction: The maintenance is scheduled for Monday, September 22. On Sep 18, 2025, at 9:24 AM, Mark
Sep 18
Walter Boeger
,
Miller, Mark
2
Sep 2
download API-REst job
I'm on the road right now with low connectivity. Please download a free trial of winzip and try
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download API-REst job
I'm on the road right now with low connectivity. Please download a free trial of winzip and try
Sep 2
Jeremy Miller
,
Mark Miller
2
Aug 23
setting the ucldMean for multilocus analysis in Beast2
Hi Jeremy, Sorry I missed this inquiry. I would submit this question to beast users, you will likely
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setting the ucldMean for multilocus analysis in Beast2
Hi Jeremy, Sorry I missed this inquiry. I would submit this question to beast users, you will likely
Aug 23
saherba...@gmail.com
,
Miller, Mark
2
Jul 30
unable to register account
Hi there, It looks like you have an account already: username = saherbatool55, email = saherbatool919
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unable to register account
Hi there, It looks like you have an account already: username = saherbatool55, email = saherbatool919
Jul 30
Jeremiah Sia
,
Miller, Mark
9
Jul 22
Partition Homogeneity Test on PAUP
Awesome. Well done. From: Jeremiah Sia <jerem...@gmail.com> Sent: Monday, July 21, 2025 9:22
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Partition Homogeneity Test on PAUP
Awesome. Well done. From: Jeremiah Sia <jerem...@gmail.com> Sent: Monday, July 21, 2025 9:22
Jul 22
曾城
,
Mark Miller
2
Jul 21
Unable to select data
Hi there, Thanks for reporting the issue. The select data feature is working ok in my interface. I
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Unable to select data
Hi there, Thanks for reporting the issue. The select data feature is working ok in my interface. I
Jul 21
Mark Miller
Jul 17
Emergency maintenance on Expanse 7/17/2025
The Expanse machine, which runs all codes except MrBayes, is currently under emergency maintenance.
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Emergency maintenance on Expanse 7/17/2025
The Expanse machine, which runs all codes except MrBayes, is currently under emergency maintenance.
Jul 17
Ziv Lieberman
, …
Miller, Mark
10
Jun 16
Request: RevBayes v1.3; additional input files
Hi Ziv, Version 1.3 is released to production now. If you clone a job, you will want to select 1.3 as
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Request: RevBayes v1.3; additional input files
Hi Ziv, Version 1.3 is released to production now. If you clone a job, you will want to select 1.3 as
Jun 16
Caroline Obert
,
Mark Miller
2
Jun 11
HAlign4
Hi Caroline, thanks for the inquiry. We will investigate and get back to you on this shortly. Mark On
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HAlign4
Hi Caroline, thanks for the inquiry. We will investigate and get back to you on this shortly. Mark On
Jun 11
Uri Garcia
,
Mark Miller
5
May 19
Problem with Loading Large Alignment – Worked Before
Hi Mark, thanks for the reply. It seems my Wi-Fi connection was blocked in some way. I was able to
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Problem with Loading Large Alignment – Worked Before
Hi Mark, thanks for the reply. It seems my Wi-Fi connection was blocked in some way. I was able to
May 19
Sami
,
Pfeiffer, Wayne
3
Apr 24
Request to Update MSBD Package for BEAST 2 on CIPRES
Hi Wayne, Merci for your quick reply! My analysis works perfectly now, perfect ! Best, Sami Le jeudi
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Request to Update MSBD Package for BEAST 2 on CIPRES
Hi Wayne, Merci for your quick reply! My analysis works perfectly now, perfect ! Best, Sami Le jeudi
Apr 24
ALEJANDRO MARTÍNEZ NAVARRO
,
Miller, Mark
2
Apr 16
Issue with subscription - 1000 hours paid but not available
Sorry for the issue, I credited your account. Mark From: 'ALEJANDRO MARTÍNEZ NAVARRO' via
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Issue with subscription - 1000 hours paid but not available
Sorry for the issue, I credited your account. Mark From: 'ALEJANDRO MARTÍNEZ NAVARRO' via
Apr 16
Harshani Dilrukshika
,
Mark Miller
2
Apr 1
RAxML_info.result error message
Hi there, This looks like a pretty normal output file for a successful run. Can you tell me what
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RAxML_info.result error message
Hi there, This looks like a pretty normal output file for a successful run. Can you tell me what
Apr 1
Jeremiah Sia
, …
Miller, Mark
4
Mar 28
RAXML bootstrapping did not complete the 1,000 replicates as being setup
Dear Mark and Wayne, Thank you so much for your replies! It worked after adjusting the bootstrap
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RAXML bootstrapping did not complete the 1,000 replicates as being setup
Dear Mark and Wayne, Thank you so much for your replies! It worked after adjusting the bootstrap
Mar 28
José Ribeiro
3
Mar 8
discrete and continuous data
Hello again. I have subscribed to more 1000 hours, but I cannot see my new credit for hours. Would
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discrete and continuous data
Hello again. I have subscribed to more 1000 hours, but I cannot see my new credit for hours. Would
Mar 8
rekha unnikrishnan
,
Mark Miller
2
Feb 18
job results are missing
If files are missing from a job run, the run failed or did not complete for some reason. Here is a
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job results are missing
If files are missing from a job run, the run failed or did not complete for some reason. Here is a
Feb 18
Said Jimmy Nivelo Porozo
, …
Bruce Onisko
3
Feb 6
activation email
Hi Wayne, I also bought some time yesterday for when that's needed. Thanks again for your help.
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activation email
Hi Wayne, I also bought some time yesterday for when that's needed. Thanks again for your help.
Feb 6
Bruce Onisko
,
Pfeiffer, Wayne
2
Jan 26
need MCMCTree from PAML
Hi Bruce, Is there some reason that you cannot use BEAST or BEAST2? They are well maintained, are
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need MCMCTree from PAML
Hi Bruce, Is there some reason that you cannot use BEAST or BEAST2? They are well maintained, are
Jan 26
Ian Mundock
, …
M.sarwar M.sarwar
3
Jan 22
Acctivation email
No, I don't have any issue. I will start my work in coming 2-4 days. On Tue, Jan 21, 2025, 11:35
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Acctivation email
No, I don't have any issue. I will start my work in coming 2-4 days. On Tue, Jan 21, 2025, 11:35
Jan 22
XICHAVO ANDRONICA MATHEBULA
,
Pfeiffer, Wayne
2
Jan 8
Analysis not converging
Hi Xichavo, * Please send me the _JOBINFO.TXT file for one of your jobs that failed to converge.
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Analysis not converging
Hi Xichavo, * Please send me the _JOBINFO.TXT file for one of your jobs that failed to converge.
Jan 8
Jeremy Miller
Jan 7
Billing issue
Hi Cipres, I noticed what appers to be inconsistencies between my credit card bill and my purchase
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Billing issue
Hi Cipres, I noticed what appers to be inconsistencies between my credit card bill and my purchase
Jan 7
Ruwani Isanka
,
Pfeiffer, Wayne
2
Jan 2
Missing results
Hi Ruwani, Your job failed to run. The last line of the stdout.txt file is ERROR: Found 5 taxa that
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Missing results
Hi Ruwani, Your job failed to run. The last line of the stdout.txt file is ERROR: Found 5 taxa that
Jan 2
Tehseen Ilyas
,
Mark Miller
2
Jan 2
account access failure
Hello Tehseen, It looks like you created a REST account, and not a browser account. REST accounts are
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account access failure
Hello Tehseen, It looks like you created a REST account, and not a browser account. REST accounts are
Jan 2
Dilara Jayasekera
,
Pfeiffer, Wayne
4
12/29/24
Bipartition file missing from RAxML-HPC BlackBox analysis
Hi Dilara, The first error message in the stdout.txt file is ERROR: Taxon Name "GU300095.
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Bipartition file missing from RAxML-HPC BlackBox analysis
Hi Dilara, The first error message in the stdout.txt file is ERROR: Taxon Name "GU300095.
12/29/24