External Email - Use Caution        

Hi Ruopeng

He did.

"
On 2021-05-05 13:31, Torkil Svensgaard wrote:
 > Perfect, thanks. Did it go stall slow while capturing, or just a bit
 > slow from valgrind overhead?

I would say it was 90% of the worst I've seen. Didn't want to push more, 
was afraid it's going to force quit again.
"

Mvh.

Torkil

On 05/05/2021 16.32, Wang, Ruopeng wrote:
> Thanks for the file. Did the user experience slow-down while generating 
> the profile (other than the slow-down by valgrind)?
> 
> Ruopeng
> 
>> On May 5, 2021, at 7:40 AM, Torkil Svensgaard <[email protected] 
>> <mailto:[email protected]>> wrote:
>>
>>        External Email - Use Caution
>>
>> Hi Ruopeng
>>
>> All the boxes are fully upgraded. Some of them have an Nvidia GPU and
>> some of them only have onboard video, but the problem is the same on all
>> of them, so probably not that.
>>
>> I sent you a callgrind file from one of my users, I hope that can
>> provide some insigts.
>>
>> Thanks,
>>
>> Torkil
>>
>> On 2021-05-04 15:11, Wang, Ruopeng wrote:
>>> HI Torkil,
>>>
>>> We tested on our CentOS 8 machines as well as CentOS 8 VM but did not
>>> notice any slow-down. I personally run freeview remotely on a CentOS 8
>>> machine occasionally and have never experience such an issue. I’m at
>>> a loss, too. :( I’m just shooting in the dark now - as I mentioned
>>> before, have you tried updating your graphics card driver? I remember
>>> quite a while ago we once had a slow-down issue on one of our
>>> machines. It turned out to be a conflict between the graphics card
>>> driver and the vtk engine we used (not sure whose fault it was). After
>>> updating the driver the problem went away.
>>>
>>> Ruopeng
>>>
>>>> On May 4, 2021, at 2:44 AM, Torkil Svensgaard <[email protected] 
>>>> <mailto:[email protected]>>
>>>> wrote:
>>>> External Email - Use Caution
>>>>
>>>> Hi again
>>>>
>>>> Also the same when run via X11 from a beastly compute node.
>>>>
>>>> As it runs just fine on Ubuntu 16.04 with the very same NFS storage
>>>> backend we are at a loss, but the finger points at something with
>>>> CentOS
>>>> Stream I guess.
>>>>
>>>> Anyone using it on CentOS 8 Stream with success?
>>>>
>>>> Mvh.
>>>>
>>>> Torkil
>>>>
>>>> On 29/04/2021 23.09, Torkil Svensgaard wrote:
>>>> Hi
>>>>
>>>> It the same on every login server. Running locally inside at
>>>> Thinlinc
>>>> session.
>>>>
>>>> Mvh.
>>>>
>>>> Torkil
>>>>
>>>> On 29/04/2021 15.05, Wang, Ruopeng wrote:
>>>> So did all the issues happen on the same machine? Did your team run
>>>> freeview locally on the machine or via remote X display?
>>>>
>>>> Ruopeng
>>>>
>>>> On Apr 29, 2021, at 8:49 AM, Torkil Svensgaard <[email protected] 
>>>> <mailto:[email protected]>>
>>>> wrote:
>>>>
>>>> External Email - Use Caution
>>>>
>>>> Hi again
>>>>
>>>> The user reports freeview being unusable right off the bat this
>>>> morning.
>>>>
>>>> He left it running in that state, is there anything I can do to
>>>> capture
>>>> something that might provide insights?
>>>>
>>>> Mvh.
>>>>
>>>> Torkil
>>>>
>>>> On 28/04/2021 21.24, Torkil Svensgaard wrote:
>>>> External Email - Use Caution
>>>>
>>>> Hi
>>>>
>>>> We've moved to an environment modules setup for the new HPC
>>>> installation
>>>> and I've made modules for 5.3.0, 6.0.0 and 7.1.1, which all exhibit
>>>> the
>>>> same symptom.
>>>>
>>>> I installed a dev build this morning and one heavy user reports the
>>>> following from working with it:
>>>>
>>>> "
>>>> I used freeview heavily during the day and it worked fine.
>>>>
>>>> Now logged on again (with the same viewer open) and it was
>>>> impossible to
>>>> work with.
>>>>
>>>> Even killing it takes forever, and after the window disappears the
>>>> terminal is still working on something.
>>>>
>>>> Had to also kill the terminal.
>>>> "
>>>>
>>>> We run Thinlinc as thin client point of entry, freeview is run
>>>> directly
>>>> on the login nodes which are fairly beefy things with 256GB RAM.
>>>>
>>>> Mvh.
>>>>
>>>> Torkil
>>>>
>>>> On 27/04/2021 23.12, fsbuild wrote:
>>>> External Email - Use Caution
>>>>
>>>> Hello Torkil,
>>>>
>>>> Not sure what version of Freesurfer you are using, but if it’s an
>>>> older
>>>> release, it could be interesting to compare the performance with
>>>> one of
>>>> the latest development builds (not a release) from *MailScanner has
>>>> detected a possible fraud attempt from "secure-web.cisco.com 
>>>> <http://secure-web.cisco.com/>[1]"
>>>> claiming
>>>> to be*
>>>>
>>> https://secure-web.cisco.com/1fCfSGPn1qXkEuvvvBRvaI4Ptbc4Y_VDhBATIsjsDTPCsUKGA68wpQ8QSGMyRuo5dqi6WKrzNk6CWEv3D3k5zgXwVSeUnKbeRMfUPHhP2dywnvdWawfc6hGOU366WlwqrUw9FCRjGeAGc_UxVQOnlVLyo87p5nMa74RlG4twGiXMh54wvDjvt3bRL7G8veAW6UWxddG2PU7QmbmDWGcL0QqQI3v5R4stApLAKQ6b48qDeL3LJC3ZwIR9FbXqj-73ujzq3nj8oO_e1uGuON87bFQ/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2Fdev%2F
>>>  
>>> <https://secure-web.cisco.com/1fCfSGPn1qXkEuvvvBRvaI4Ptbc4Y_VDhBATIsjsDTPCsUKGA68wpQ8QSGMyRuo5dqi6WKrzNk6CWEv3D3k5zgXwVSeUnKbeRMfUPHhP2dywnvdWawfc6hGOU366WlwqrUw9FCRjGeAGc_UxVQOnlVLyo87p5nMa74RlG4twGiXMh54wvDjvt3bRL7G8veAW6UWxddG2PU7QmbmDWGcL0QqQI3v5R4stApLAKQ6b48qDeL3LJC3ZwIR9FbXqj-73ujzq3nj8oO_e1uGuON87bFQ/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2Fdev%2F>
>>>>
>>>>
>>>>
>>> <https://secure-web.cisco.com/11eosYMqxQIzJXYwfskbMMIPybJKGeVS7FnOZrEup8mvl0_xfAq3vjTQd-e0eiOGTDacIj_SAHaTlklHvVT7UJLV4Ng-yu0B4D36lSgtCjOwEoU0USFCfuKCU44sfK_UDlvhO05uNjj3gGp4qmWavfc90C6CqdF24OsTPBw6lj1lo3dMvWmY-D9xl3oAD0gx8_XmNegRGP6qgyi_3FD9DiFvjNTCPhzQQqUCoz6LQPup60qbCkKXMoXG6KMA-OhLf3Ysvmo7TrN9eWe_dxTDMUw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2Fdev%2F>.
>>>>
>>>>
>>>> There’s an archive and RPM for CentOS7 and an archive for a
>>>> CentOS8 build.
>>>>
>>>> - R.
>>>>
>>>> On Apr 27, 2021, at 04:18, Torkil Svensgaard <[email protected]>
>>>> wrote:
>>>>
>>>> External Email - Use Caution
>>>>
>>>> Hi Ruopeng
>>>>
>>>> The users all agree it is GUI responsiveness. Everything else can
>>>> run
>>>> just stellar on the very same desktop, matlab etc, at the same
>>>> time as
>>>> freeview stalls.
>>>>
>>>> Mvh.
>>>>
>>>> Torkil
>>>>
>>>> On 26/04/2021 19.16, Wang, Ruopeng wrote:
>>>> Hi Torkil,
>>>>
>>>> Can you tell what part of the program slows down the most? Data
>>>> loading? GUI responsiveness? Image/3D rendering? Or just in general?
>>>> If it is the rendering, maybe try updating the graphics card driver
>>>> to the latest?
>>>>
>>>> Best,
>>>> Ruopeng
>>>>
>>>> On Apr 26, 2021, at 6:06 AM, Torkil Svensgaard <[email protected]>
>>>> wrote:
>>>>
>>>> External Email - Use Caution
>>>>
>>>> Hi
>>>>
>>>> We have an older Ubuntu 16.04 HPC installation on which Freeview
>>>> runs
>>>> just fine. We also have a brand new CentOS 8 Stream HPC
>>>> installation
>>>> with much better hardware on which Freeview slows to a crawl
>>>> after a bit
>>>> of use.
>>>>
>>>> There's no error as such, it just slows to the point of being
>>>> unusable.
>>>>
>>>> Any suggestions on how to fix it, or pinpoint the cause?
>>>>
>>>> Thanks,
>>>>
>>>> Torkil
>>>>
>>>> _______________________________________________
>>>> Freesurfer mailing list
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>>>>
>>>>
>>>>
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>>>>
>>>>
>>>> _______________________________________________
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>>>>
>>>>
>>>>
>>> <https://secure-web.cisco.com/1ZSo3b7UZQvI87wlIWMxXiY8FNo9ppP_EMAuoLl2dyKZaXHHwwd8FIbgg_K7F0-UhXFuTt9dgR8j4eAFXChTX-nq8X3jtFYPllkw4s2D1PpOPgXfXko-sYDOv6xrQVkRqceKsnnQ4O3xc1bxvH33S1CtvdOsW20IhTVg_xHqpFDDpYAQEo_92j2xDkmSlAuIAPWjL_h8rl-Tz8ZuuU3isFx7bg6sk8PTqKIfMh0FIJCAQuXdn8n2036b7gr3K7raNuHqxutEnCTdr2EfLDZbT6g/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
>>>>
>>>>
>>>> The information in this e-mail is intended only for the person to
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>>>> Mass General Brigham Compliance HelpLine at*MailScanner has detected
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>>>>
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>>>>
>>>>
>>>>
>>> <http://secure-web.cisco.com/1iIikemoA9DiusPW-kySeM7Lhv0S5lGLLVKXGGnBXsLSRp74JoEwyZECaDJe2aKVIQOIs8cOgEpF8stXM_2tGIO0KcGv9VGtX-Pck6nEEDPqOabMy1IbD-UvlmWFVd3at2SCZcMbc6Va5Qk48zzQZqonftcwqFl8aOd9YNWjgxtb_diWkUexjHZFfvXgjEggnb9MqNb_4rVItny0qIfpzXbiDtk2KJuXHMA1lyUZRd0ggdcg9C9fIv8BTMva6qTMyV16aNQkPAdZgNGL712FctA/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>.
>>>>
>>>>
>>>> If the e-mail was sent to you in error but does not contain patient
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>>>
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>>>
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>>>
>>>
>>> Links:
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>>> https://secure-web.cisco.com/1ao3sKQK7fs7qxqnD2qA3fxZ3cdcK03Zh-FjobUlsEDzzzhhPlgQ0euK9BVnxYhusKzg4cMTmatXVQn-IUBX66wFAQVGvpiRoxlOGKra2mSjfcm9oW79jlHrzGNefSquSOr6A6tw8J2sM63-nZsLwtFBibrbs5SQSGCKjs43ppDeNOe4SjeMb5PaM_BomLj80ha8N_X4T8BjCqCI8uzQSdWyowHaHtsPmEY00NJsJRtW1AfKqYHuyhEHIaVjC_XEWx4NDPsAIGzTXmH0K4lEF-w/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
>>>  
>>> <https://secure-web.cisco.com/1ao3sKQK7fs7qxqnD2qA3fxZ3cdcK03Zh-FjobUlsEDzzzhhPlgQ0euK9BVnxYhusKzg4cMTmatXVQn-IUBX66wFAQVGvpiRoxlOGKra2mSjfcm9oW79jlHrzGNefSquSOr6A6tw8J2sM63-nZsLwtFBibrbs5SQSGCKjs43ppDeNOe4SjeMb5PaM_BomLj80ha8N_X4T8BjCqCI8uzQSdWyowHaHtsPmEY00NJsJRtW1AfKqYHuyhEHIaVjC_XEWx4NDPsAIGzTXmH0K4lEF-w/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
>>> The information in this e-mail is intended only for the person to whom
>>> it is addressed. If you believe this e-mail was sent to you in error
>>> and the e-mail contains patient information, please contact the Mass
>>> General Brigham Compliance HelpLine at
>>> http://secure-web.cisco.com/1BYruLI95mUO9Wsaev5YPaURt6vUhAmXFHiNXENg0B5PQj-lgvjMleU5qUL9M2C1SYqVaGnr1Cil0cKr1RqmLYH35b4LH-7I78NWCANoRsu7I1mCRn_inlwom3NeO7FGZfFzQdhaGwgSq2kJRt2Lw_eOy0IZEaZBMKVwU2Mltz7FTCnKYm7yXQb4AxKa33zpcsDR6QYrWKBNShDfHkU2QdzdmXdpuRKfoi0LLJWU6AWYvIcfQNcaW7aXtQmdoqwKAgis05hlOdDqPnkrUaUkyng/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline
>>>  
>>> <http://secure-web.cisco.com/1BYruLI95mUO9Wsaev5YPaURt6vUhAmXFHiNXENg0B5PQj-lgvjMleU5qUL9M2C1SYqVaGnr1Cil0cKr1RqmLYH35b4LH-7I78NWCANoRsu7I1mCRn_inlwom3NeO7FGZfFzQdhaGwgSq2kJRt2Lw_eOy0IZEaZBMKVwU2Mltz7FTCnKYm7yXQb4AxKa33zpcsDR6QYrWKBNShDfHkU2QdzdmXdpuRKfoi0LLJWU6AWYvIcfQNcaW7aXtQmdoqwKAgis05hlOdDqPnkrUaUkyng/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>.
>>>  
>>> If the e-mail was
>>> sent to you in error but does not contain patient information, please
>>> contact the sender and properly dispose of the e-mail.
>>> Please note that this e-mail is not secure (encrypted).  If you do not
>>> wish to continue communication over unencrypted e-mail, please notify
>>> the sender of this message immediately.  Continuing to send or respond
>>> to e-mail after receiving this message means you understand and accept
>>> this risk and wish to continue to communicate over unencrypted e-mail.
>>
>> _______________________________________________
>> Freesurfer mailing list
>> [email protected] <mailto:[email protected]>
>> https://secure-web.cisco.com/1NOdomzueSpyxuGjDC0vf2O2yt1yRospKvqUVygtWz_HOXuFgGyUvW9Nwx5C6gJDZbZhu6xlXxTQhspIuigTdM7ncTKl_Lb-__vOxWy-XjJiSPerfLYoSAy-w4hA07LWC8S2iusMSTkwWiP6yLsGN-nABb4i6HMphhm0Yagn17uH-CDiTe6WB6sOu_wP-DcDV0jbtDLtNvmB2-DERZEnGZChaY87sG9grwBBgEiG_6U8vLv0Qv2AE_mhHh1CCOTaqEFn0HdbNPfeHqbjw-yiiSw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
>>  
>> <https://secure-web.cisco.com/1NOdomzueSpyxuGjDC0vf2O2yt1yRospKvqUVygtWz_HOXuFgGyUvW9Nwx5C6gJDZbZhu6xlXxTQhspIuigTdM7ncTKl_Lb-__vOxWy-XjJiSPerfLYoSAy-w4hA07LWC8S2iusMSTkwWiP6yLsGN-nABb4i6HMphhm0Yagn17uH-CDiTe6WB6sOu_wP-DcDV0jbtDLtNvmB2-DERZEnGZChaY87sG9grwBBgEiG_6U8vLv0Qv2AE_mhHh1CCOTaqEFn0HdbNPfeHqbjw-yiiSw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
> 
> 
> _______________________________________________
> Freesurfer mailing list
> [email protected]
> https://secure-web.cisco.com/1NOdomzueSpyxuGjDC0vf2O2yt1yRospKvqUVygtWz_HOXuFgGyUvW9Nwx5C6gJDZbZhu6xlXxTQhspIuigTdM7ncTKl_Lb-__vOxWy-XjJiSPerfLYoSAy-w4hA07LWC8S2iusMSTkwWiP6yLsGN-nABb4i6HMphhm0Yagn17uH-CDiTe6WB6sOu_wP-DcDV0jbtDLtNvmB2-DERZEnGZChaY87sG9grwBBgEiG_6U8vLv0Qv2AE_mhHh1CCOTaqEFn0HdbNPfeHqbjw-yiiSw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
> The information in this e-mail is intended only for the person to whom it is 
> addressed. If you believe this e-mail was sent to you in error and the e-mail 
> contains patient information, please contact the Mass General Brigham 
> Compliance HelpLine at 
> http://secure-web.cisco.com/1T19b8pGPsIKxbgs3vELmBSCuwIbbJgn0vABTNPgSEazrqvNmz5oVHASCvpdf-olxgN1NGAUTgHN22h2zUS-zEbPmuUkUBaxGVtI0MAqWp4dxms1KEzgLW4YHd9qAJh3acGYXnyhkSgQJajT-tnoZPqmPVq6In9nhloyctilxgNhBICWhpCic12eoHwsfFpBRdZavhNK77fAL4sd-aDpc_agWhcUfeUkynv5pFd8Kyq644KG5d3PzJ6tgOl2P4aW_gNjT1jNEi2PnW4NrVqtVDQ/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline
>  . If the e-mail was sent to you in error but does not contain patient 
> information, please contact the sender and properly dispose of the e-mail.
> Please note that this e-mail is not secure (encrypted).  If you do not wish 
> to continue communication over unencrypted e-mail, please notify the sender 
> of this message immediately.  Continuing to send or respond to e-mail after 
> receiving this message means you understand and accept this risk and wish to 
> continue to communicate over unencrypted e-mail.
> 

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