Re: [Freesurfer] MRIread error
The error message you mention ("... could not open file"). Is not in
this recon-all.log file.
On 08/30/2018 04:23 PM, Song, Da-Yea wrote:
> External Email - Use Caution
>
> I have attached the recon-all.log file for a different subject with the same
> error. Hope this helps!
>
> Thanks,
> Da-yea
>
> -Original Message-
> From: freesurfer-boun...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> Sent: Wednesday, August 29, 2018 4:58 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] MRIread error
>
> Can you send the recon-all.log file?
>
> On 08/29/2018 04:51 PM, Song, Da-Yea wrote:
>> External Email - Use Caution
>>
>> There is enough disk space and it works fine with the other subjects. But
>> for a few subjects in particular I seem to get the same error message. I
>> checked once more and it seems that the rh.white files are being saved in
>> the stats folder (rather than being in the "surf" folder) . The size of the
>> files are 0KB.
>>
>> -Original Message-
>> From: freesurfer-boun...@nmr.mgh.harvard.edu
>> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas
>> N. Greve
>> Sent: Wednesday, August 29, 2018 4:44 PM
>> To: freesurfer@nmr.mgh.harvard.edu
>> Subject: Re: [Freesurfer] MRIread error
>>
>> Check permissions first. Look at the size of the file. Is it much smaller
>> than other rh.white files in other subjects? Have you run out of disk space?
>>
>> On 08/29/2018 04:37 PM, Song, Da-Yea wrote:
>>> External Email - Use Caution
>>>
>>> Hi everyone,
>>>
>>> I'm trying to pre-process subjects through the pipeline but keep
>>> getting a handful of subjects that error out within seconds of
>>> running them. The error message I get is:
>>>
>>> MRISread(/subjects/002_1006/surf/rh.white):could not open file
>>>
>>> When I go into the subject's folder, I find the rh.white file in the
>>> stats folder. I've run about 100 subjects without an issue but for
>>> some reason there are a few subjects that will stop processing with
>>> the same error message. Any suggestions or comments would be greatly
>>> appreciated.
>>>
>>> Thanks!
>>>
>>> Dayea
>>>
>>> -
>>> -
>>> --
>>> Disclaimer:
>>>
>>>
>>> The materials in this e-mail are private and may contain Protected
>>> Information. Please note that e-mail communication is not encrypted
>>> by default. You have the right to request further emails be encrypted
>>> by notifying the sender. Your continued use of e-mail constitutes
>>> your acknowledgment of these confidentiality and security
>>> limitations. If you are not the intended recipient, be advised that
>>> any unauthorized use, disclosure, copying, distribution, or the
>>> taking of any action in reliance on the contents of this information is
>>> strictly prohibited.
>>> If you have received this e-mail in error, please immediately notify
>>> the sender via telephone or return e-mail.
>>>
>>>
>>> ___
>>> Freesurfer mailing list
>>> Freesurfer@nmr.mgh.harvard.edu
>>> https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.har
>>> v
>>> ard.edu_mailman_listinfo_freesurfer=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlL
>>> D
>>> GrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=
>>> e
>>> 98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=LpELKCdVe1n-qbC8ZUaMHYML
>>> Z
>>> N3Fra2zLobAGw6K3tI=
>> ___
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harv
>> ard.edu_mailman_listinfo_freesurfer=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLD
>> GrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e
>> 98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=LpELKCdVe1n-qbC8ZUaMHYMLZ
>> N3Fra2zLobAGw6K3tI=
>>
>>
>> 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 Partners Compliance
>> HelpLine at
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__www.pa
Re: [Freesurfer] MRIread error
Can you send the recon-all.log file? On 08/29/2018 04:51 PM, Song, Da-Yea wrote: > External Email - Use Caution > > There is enough disk space and it works fine with the other subjects. But for > a few subjects in particular I seem to get the same error message. I checked > once more and it seems that the rh.white files are being saved in the stats > folder (rather than being in the "surf" folder) . The size of the files are > 0KB. > > -Original Message- > From: freesurfer-boun...@nmr.mgh.harvard.edu > [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve > Sent: Wednesday, August 29, 2018 4:44 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] MRIread error > > Check permissions first. Look at the size of the file. Is it much smaller > than other rh.white files in other subjects? Have you run out of disk space? > > On 08/29/2018 04:37 PM, Song, Da-Yea wrote: >> External Email - Use Caution >> >> Hi everyone, >> >> I'm trying to pre-process subjects through the pipeline but keep >> getting a handful of subjects that error out within seconds of running >> them. The error message I get is: >> >> MRISread(/subjects/002_1006/surf/rh.white):could not open file >> >> When I go into the subject's folder, I find the rh.white file in the >> stats folder. I've run about 100 subjects without an issue but for >> some reason there are a few subjects that will stop processing with >> the same error message. Any suggestions or comments would be greatly >> appreciated. >> >> Thanks! >> >> Dayea >> >> -- >> -- >> Disclaimer: >> >> >> The materials in this e-mail are private and may contain Protected >> Information. Please note that e-mail communication is not encrypted by >> default. You have the right to request further emails be encrypted by >> notifying the sender. Your continued use of e-mail constitutes your >> acknowledgment of these confidentiality and security limitations. If >> you are not the intended recipient, be advised that any unauthorized >> use, disclosure, copying, distribution, or the taking of any action in >> reliance on the contents of this information is strictly prohibited. >> If you have received this e-mail in error, please immediately notify >> the sender via telephone or return e-mail. >> >> >> ___ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harv >> ard.edu_mailman_listinfo_freesurfer=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLD >> GrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e >> 98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=LpELKCdVe1n-qbC8ZUaMHYMLZ >> N3Fra2zLobAGw6K3tI= > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harvard.edu_mailman_listinfo_freesurfer=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLDGrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=LpELKCdVe1n-qbC8ZUaMHYMLZN3Fra2zLobAGw6K3tI= > > > 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 Partners Compliance HelpLine > at > https://urldefense.proofpoint.com/v2/url?u=http-3A__www.partners.org_complianceline=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLDGrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=OWWchzmA_noIdnscfxQPEUfHeGAEL_D8RplFnwNr7j0= > . 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. > > > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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 Partners Compliance HelpLine at http://www.partners.org/complianceline . 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.
Re: [Freesurfer] MRIread error
External Email - Use Caution There is enough disk space and it works fine with the other subjects. But for a few subjects in particular I seem to get the same error message. I checked once more and it seems that the rh.white files are being saved in the stats folder (rather than being in the "surf" folder) . The size of the files are 0KB. -Original Message- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve Sent: Wednesday, August 29, 2018 4:44 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] MRIread error Check permissions first. Look at the size of the file. Is it much smaller than other rh.white files in other subjects? Have you run out of disk space? On 08/29/2018 04:37 PM, Song, Da-Yea wrote: > > External Email - Use Caution > > Hi everyone, > > I'm trying to pre-process subjects through the pipeline but keep > getting a handful of subjects that error out within seconds of running > them. The error message I get is: > > MRISread(/subjects/002_1006/surf/rh.white):could not open file > > When I go into the subject's folder, I find the rh.white file in the > stats folder. I've run about 100 subjects without an issue but for > some reason there are a few subjects that will stop processing with > the same error message. Any suggestions or comments would be greatly > appreciated. > > Thanks! > > Dayea > > -- > -- > Disclaimer: > > > The materials in this e-mail are private and may contain Protected > Information. Please note that e-mail communication is not encrypted by > default. You have the right to request further emails be encrypted by > notifying the sender. Your continued use of e-mail constitutes your > acknowledgment of these confidentiality and security limitations. If > you are not the intended recipient, be advised that any unauthorized > use, disclosure, copying, distribution, or the taking of any action in > reliance on the contents of this information is strictly prohibited. > If you have received this e-mail in error, please immediately notify > the sender via telephone or return e-mail. > > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harv > ard.edu_mailman_listinfo_freesurfer=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLD > GrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e > 98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=LpELKCdVe1n-qbC8ZUaMHYMLZ > N3Fra2zLobAGw6K3tI= ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harvard.edu_mailman_listinfo_freesurfer=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLDGrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=LpELKCdVe1n-qbC8ZUaMHYMLZN3Fra2zLobAGw6K3tI= 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 Partners Compliance HelpLine at https://urldefense.proofpoint.com/v2/url?u=http-3A__www.partners.org_complianceline=DwIF-g=-6Xp7zzYCOuh1vlHYMPGlLDGrbTByhvtrs9nrrENlxA=Ej6I9f50Syd-eFwAKeesOPRE0P9n7bIMdmFlrQs00s8=e98J_H-7BF0EKDAVuJ-2kvx3azQNKX1ulVz4U_li3Gk=OWWchzmA_noIdnscfxQPEUfHeGAEL_D8RplFnwNr7j0= . 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. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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 Partners Compliance HelpLine at http://www.partners.org/complianceline . 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.
Re: [Freesurfer] MRIread error
Check permissions first. Look at the size of the file. Is it much smaller than other rh.white files in other subjects? Have you run out of disk space? On 08/29/2018 04:37 PM, Song, Da-Yea wrote: > > External Email - Use Caution > > Hi everyone, > > I’m trying to pre-process subjects through the pipeline but keep > getting a handful of subjects that error out within seconds of running > them. The error message I get is: > > MRISread(/subjects/002_1006/surf/rh.white):could not open file > > When I go into the subject’s folder, I find the rh.white file in the > stats folder. I’ve run about 100 subjects without an issue but for > some reason there are a few subjects that will stop processing with > the same error message. Any suggestions or comments would be greatly > appreciated. > > Thanks! > > Dayea > > > Disclaimer: > > > The materials in this e-mail are private and may contain Protected > Information. Please note that e-mail communication is not encrypted by > default. You have the right to request further emails be encrypted by > notifying the sender. Your continued use of e-mail constitutes your > acknowledgment of these confidentiality and security limitations. If > you are not the intended recipient, be advised that any unauthorized > use, disclosure, copying, distribution, or the taking of any action in > reliance on the contents of this information is strictly prohibited. > If you have received this e-mail in error, please immediately notify > the sender via telephone or return e-mail. > > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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 Partners Compliance HelpLine at http://www.partners.org/complianceline . 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.
[Freesurfer] MRIread error
External Email - Use Caution Hi everyone, I'm trying to pre-process subjects through the pipeline but keep getting a handful of subjects that error out within seconds of running them. The error message I get is: MRISread(/subjects/002_1006/surf/rh.white):could not open file When I go into the subject's folder, I find the rh.white file in the stats folder. I've run about 100 subjects without an issue but for some reason there are a few subjects that will stop processing with the same error message. Any suggestions or comments would be greatly appreciated. Thanks! Dayea -- Disclaimer: The materials in this e-mail are private and may contain Protected Information. Please note that e-mail communication is not encrypted by default. You have the right to request further emails be encrypted by notifying the sender. Your continued use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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 Partners Compliance HelpLine at http://www.partners.org/complianceline . 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.
