Re: [HCP-Users] Resting State processing
To further explain: "latest master" means you should *not* go to the
"releases" page on github. Instead, go to the main page,
https://github.com/Washington-University/Pipelines , and click the green
"clone or download" button on the upper right above the file list.
Tim
On Tue, Jan 9, 2018 at 11:25 AM, Glasser, Matthew
wrote:
> See my response to his question. It should work if you have the latest
> version of master with MSM v2 and everything is installed.
>
> Peace,
>
> Matt.
>
> From: "Sanchez, Juan (NYSPI)"
> Date: Tuesday, January 9, 2018 at 11:24 AM
> To: Timothy Hendrickson , Matt Glasser <
> glass...@wustl.edu>
> Cc: "hcp-users@humanconnectome.org"
>
> Subject: Re: [HCP-Users] Resting State processing
>
> I was having the same problem with the 3_22
> *FreeSurfer2CaretConvertAndRegisterNonlinear.sh*
> *and was able to download the msm binaried and the params file
> from https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v1/
> <https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v1/>*
>
> however I am runinng into a problem with the script at
>
> ${MSMBin}/msm --levels=4 --conf=${MSMBin}/allparameterssulcDRconf
> --inmesh="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${
> Hemisphere}.sphere.rot.native.surf.gii --trans="$AtlasSpaceFolder"/"$
> NativeFolder"/${Subject}.${Hemisphere}.sphere.rot.native.surf.gii
> --refmesh="$AtlasSpaceFolder"/"$Subject"."$Hemisphere".
> sphere."$HighResMesh"k_fs_LR.surf.gii --indata="$AtlasSpaceFolder"/"
> $NativeFolder"/${Subject}.${Hemisphere}.sulc.native.shape.gii
> --refdata="$AtlasSpaceFolder"/${Subject}.${Hemisphere}.
> refsulc."$HighResMesh"k_fs_LR.shape.gii --out="$AtlasSpaceFolder"/"$
> NativeFolder"/MSMSulc/${Hemisphere}. --verbose
>
> cd $DIR
>
>cp
> "$AtlasSpaceFolder"/"$NativeFolder"/MSMSulc/${Hemisphere}.HIGHRES_transformed.surf.gii
> "$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${
> Hemisphere}.sphere.MSMSulc.native.surf.gii
>
> The HIGHRES file does not exist.
> --
> *From:* hcp-users-boun...@humanconnectome.org humanconnectome.org> on behalf of Timothy Hendrickson
> *Sent:* Tuesday, January 9, 2018 12:11:20 PM
> *To:* Glasser, Matthew
> *Cc:* hcp-users@humanconnectome.org
> *Subject:* Re: [HCP-Users] Resting State processing
>
>
> *ATTENTION: This email came from an external source. Do not open
> attachments or click on links from unknown senders or unexpected emails.*
> Hi Matthew,
>
> The file does not exist. I see now that the PostFreeSurfer pipeline I have
> locally is different than the latest version found on github (specifically
> *FreeSurfer2CaretConvertAndRegisterNonlinear.sh).
> *I see that the line referencing *allparameterssulcDRconf *has been
> commented out in favor of *MSMSulcStrainFinalconf*, however, this file
> does not appear to exist either. Which version of MSM HOCR is the most
> recent that should be used? I am using version 2)
>
> On a completely other note why aren't these configuration files already
> included in the HCP pipelines? It seems very burdensome to require each
> user to mimic the exact version of the MSM binaries that
> *FreeSurfer2CaretConvertAndRegisterNonlinear.sh
> *expects.
>
> -Tim
>
> Timothy Hendrickson
> Department of Psychiatry
> University of Minnesota
> Bioinformatics and Computational Biology M.S. Candidate
> Office: 612-624-6441 <(612)%20624-6441>
> Mobile: 507-259-3434 <(507)%20259-3434> (texts okay)
>
> On Mon, Jan 8, 2018 at 7:16 PM, Glasser, Matthew
> wrote:
>
> Does the file exist? That might be the old config file it is looking for
> suggesting that you don’t have the latest master.
>
> Peace,
>
> Matt.
>
> From: Timothy Hendrickson
> Date: Monday, January 8, 2018 at 9:15 AM
> To: "hcp-users@humanconnectome.org"
> Cc: Matt Glasser
> Subject: Re: [HCP-Users] Resting State processing
>
> Hello all,
>
> Despite having the most recent version of the hcp pipeline (3.22) and
> downloading the MSM configuration binaries, however, I am still receiving
> an error when I attempt to run the PreFreeSurfer pipeline with
> RegName="MSMSulc". This is the error message I receive:
> */opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf:
> Couldn't open the file! *
> -Tim
>
> Timothy Hendrickson
> Department of Psychiatry
> University of Minnesota
> Bioinformatics and Computational Biology M.S. Candidate
> Office: 612-624-6441 <(612)%20624-6441>
> Mobile: 507-259-3434 <(507)%20259-3434> (texts okay)
>
>
> ___
> HCP-Users mailing list
> HCP-Users@humanconnectome.org
> http://lists.humanconnectome.org/mailman/listinfo/hcp-users
>
> ___
> HCP-Users mailing list
> HCP-Users@humanconnectome.org
> http://lists.humanconnectome.org/mailman/listinfo/hcp-users
>
___
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HCP-Users@humanconnectome.org
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Re: [HCP-Users] Resting State processing
See my response to his question. It should work if you have the latest version
of master with MSM v2 and everything is installed.
Peace,
Matt.
From: "Sanchez, Juan (NYSPI)"
mailto:juan.sanc...@nyspi.columbia.edu>>
Date: Tuesday, January 9, 2018 at 11:24 AM
To: Timothy Hendrickson mailto:hendr...@umn.edu>>, Matt
Glasser mailto:glass...@wustl.edu>>
Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
mailto:HCP-Users@humanconnectome.org>>
Subject: Re: [HCP-Users] Resting State processing
I was having the same problem with the 3_22
FreeSurfer2CaretConvertAndRegisterNonlinear.sh
and was able to download the msm binaried and the params file from
https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v1/
however I am runinng into a problem with the script at
${MSMBin}/msm --levels=4 --conf=${MSMBin}/allparameterssulcDRconf
--inmesh="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sphere.rot.native.surf.gii
--trans="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sphere.rot.native.surf.gii
--refmesh="$AtlasSpaceFolder"/"$Subject"."$Hemisphere".sphere."$HighResMesh"k_fs_LR.surf.gii
--indata="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sulc.native.shape.gii
--refdata="$AtlasSpaceFolder"/${Subject}.${Hemisphere}.refsulc."$HighResMesh"k_fs_LR.shape.gii
--out="$AtlasSpaceFolder"/"$NativeFolder"/MSMSulc/${Hemisphere}. --verbose
cd $DIR
cp
"$AtlasSpaceFolder"/"$NativeFolder"/MSMSulc/${Hemisphere}.HIGHRES_transformed.surf.gii
"$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sphere.MSMSulc.native.surf.gii
The HIGHRES file does not exist.
From:
hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>
mailto:hcp-users-boun...@humanconnectome.org>>
on behalf of Timothy Hendrickson mailto:hendr...@umn.edu>>
Sent: Tuesday, January 9, 2018 12:11:20 PM
To: Glasser, Matthew
Cc: hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>
Subject: Re: [HCP-Users] Resting State processing
ATTENTION: This email came from an external source. Do not open attachments or
click on links from unknown senders or unexpected emails.
Hi Matthew,
The file does not exist. I see now that the PostFreeSurfer pipeline I have
locally is different than the latest version found on github (specifically
FreeSurfer2CaretConvertAndRegisterNonlinear.sh). I see that the line
referencing allparameterssulcDRconf has been commented out in favor of
MSMSulcStrainFinalconf, however, this file does not appear to exist either.
Which version of MSM HOCR is the most recent that should be used? I am using
version 2)
On a completely other note why aren't these configuration files already
included in the HCP pipelines? It seems very burdensome to require each user to
mimic the exact version of the MSM binaries that
FreeSurfer2CaretConvertAndRegisterNonlinear.sh expects.
-Tim
Timothy Hendrickson
Department of Psychiatry
University of Minnesota
Bioinformatics and Computational Biology M.S. Candidate
Office: 612-624-6441
Mobile: 507-259-3434 (texts okay)
On Mon, Jan 8, 2018 at 7:16 PM, Glasser, Matthew
mailto:glass...@wustl.edu>> wrote:
Does the file exist? That might be the old config file it is looking for
suggesting that you don’t have the latest master.
Peace,
Matt.
From: Timothy Hendrickson mailto:hendr...@umn.edu>>
Date: Monday, January 8, 2018 at 9:15 AM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
mailto:HCP-Users@humanconnectome.org>>
Cc: Matt Glasser mailto:glass...@wustl.edu>>
Subject: Re: [HCP-Users] Resting State processing
Hello all,
Despite having the most recent version of the hcp pipeline (3.22) and
downloading the MSM configuration binaries, however, I am still receiving an
error when I attempt to run the PreFreeSurfer pipeline with RegName="MSMSulc".
This is the error message I receive:
/opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf:
Couldn't open the file!
-Tim
Timothy Hendrickson
Department of Psychiatry
University of Minnesota
Bioinformatics and Computational Biology M.S. Candidate
Office: 612-624-6441
Mobile: 507-259-3434 (texts okay)
___
HCP-Users mailing list
HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Resting State processing
I was having the same problem with the 3_22
FreeSurfer2CaretConvertAndRegisterNonlinear.sh
and was able to download the msm binaried and the params file from
https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v1/
however I am runinng into a problem with the script at
${MSMBin}/msm --levels=4 --conf=${MSMBin}/allparameterssulcDRconf
--inmesh="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sphere.rot.native.surf.gii
--trans="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sphere.rot.native.surf.gii
--refmesh="$AtlasSpaceFolder"/"$Subject"."$Hemisphere".sphere."$HighResMesh"k_fs_LR.surf.gii
--indata="$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sulc.native.shape.gii
--refdata="$AtlasSpaceFolder"/${Subject}.${Hemisphere}.refsulc."$HighResMesh"k_fs_LR.shape.gii
--out="$AtlasSpaceFolder"/"$NativeFolder"/MSMSulc/${Hemisphere}. --verbose
cd $DIR
cp
"$AtlasSpaceFolder"/"$NativeFolder"/MSMSulc/${Hemisphere}.HIGHRES_transformed.surf.gii
"$AtlasSpaceFolder"/"$NativeFolder"/${Subject}.${Hemisphere}.sphere.MSMSulc.native.surf.gii
The HIGHRES file does not exist.
From: hcp-users-boun...@humanconnectome.org
on behalf of Timothy Hendrickson
Sent: Tuesday, January 9, 2018 12:11:20 PM
To: Glasser, Matthew
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Resting State processing
ATTENTION: This email came from an external source. Do not open attachments or
click on links from unknown senders or unexpected emails.
Hi Matthew,
The file does not exist. I see now that the PostFreeSurfer pipeline I have
locally is different than the latest version found on github (specifically
FreeSurfer2CaretConvertAndRegisterNonlinear.sh). I see that the line
referencing allparameterssulcDRconf has been commented out in favor of
MSMSulcStrainFinalconf, however, this file does not appear to exist either.
Which version of MSM HOCR is the most recent that should be used? I am using
version 2)
On a completely other note why aren't these configuration files already
included in the HCP pipelines? It seems very burdensome to require each user to
mimic the exact version of the MSM binaries that
FreeSurfer2CaretConvertAndRegisterNonlinear.sh expects.
-Tim
Timothy Hendrickson
Department of Psychiatry
University of Minnesota
Bioinformatics and Computational Biology M.S. Candidate
Office: 612-624-6441
Mobile: 507-259-3434 (texts okay)
On Mon, Jan 8, 2018 at 7:16 PM, Glasser, Matthew
mailto:glass...@wustl.edu>> wrote:
Does the file exist? That might be the old config file it is looking for
suggesting that you don’t have the latest master.
Peace,
Matt.
From: Timothy Hendrickson mailto:hendr...@umn.edu>>
Date: Monday, January 8, 2018 at 9:15 AM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
mailto:HCP-Users@humanconnectome.org>>
Cc: Matt Glasser mailto:glass...@wustl.edu>>
Subject: Re: [HCP-Users] Resting State processing
Hello all,
Despite having the most recent version of the hcp pipeline (3.22) and
downloading the MSM configuration binaries, however, I am still receiving an
error when I attempt to run the PreFreeSurfer pipeline with RegName="MSMSulc".
This is the error message I receive:
/opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf:
Couldn't open the file!
-Tim
Timothy Hendrickson
Department of Psychiatry
University of Minnesota
Bioinformatics and Computational Biology M.S. Candidate
Office: 612-624-6441
Mobile: 507-259-3434 (texts okay)
___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Resting State processing
Those files are in the pipelines: https://github.com/Washington-University/Pipelines/tree/master/MSMConfig Version 2 of MSM is the correct one to use. It is indeed correct that you use the latest version of the HCP Pipelines with the latest version of MSM and make sure that you have installed everything correctly. MSM was not previously publicly available before this version. Matt. From: Timothy Hendrickson mailto:hendr...@umn.edu>> Date: Tuesday, January 9, 2018 at 11:11 AM To: Matt Glasser mailto:glass...@wustl.edu>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" mailto:HCP-Users@humanconnectome.org>> Subject: Re: [HCP-Users] Resting State processing Hi Matthew, The file does not exist. I see now that the PostFreeSurfer pipeline I have locally is different than the latest version found on github (specifically FreeSurfer2CaretConvertAndRegisterNonlinear.sh). I see that the line referencing allparameterssulcDRconf has been commented out in favor of MSMSulcStrainFinalconf, however, this file does not appear to exist either. Which version of MSM HOCR is the most recent that should be used? I am using version 2) On a completely other note why aren't these configuration files already included in the HCP pipelines? It seems very burdensome to require each user to mimic the exact version of the MSM binaries that FreeSurfer2CaretConvertAndRegisterNonlinear.sh expects. -Tim Timothy Hendrickson Department of Psychiatry University of Minnesota Bioinformatics and Computational Biology M.S. Candidate Office: 612-624-6441 Mobile: 507-259-3434 (texts okay) On Mon, Jan 8, 2018 at 7:16 PM, Glasser, Matthew mailto:glass...@wustl.edu>> wrote: Does the file exist? That might be the old config file it is looking for suggesting that you don’t have the latest master. Peace, Matt. From: Timothy Hendrickson mailto:hendr...@umn.edu>> Date: Monday, January 8, 2018 at 9:15 AM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" mailto:HCP-Users@humanconnectome.org>> Cc: Matt Glasser mailto:glass...@wustl.edu>> Subject: Re: [HCP-Users] Resting State processing Hello all, Despite having the most recent version of the hcp pipeline (3.22) and downloading the MSM configuration binaries, however, I am still receiving an error when I attempt to run the PreFreeSurfer pipeline with RegName="MSMSulc". This is the error message I receive: /opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf: Couldn't open the file! -Tim Timothy Hendrickson Department of Psychiatry University of Minnesota Bioinformatics and Computational Biology M.S. Candidate Office: 612-624-6441 Mobile: 507-259-3434 (texts okay) ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Resting State processing
Hi Matthew, The file does not exist. I see now that the PostFreeSurfer pipeline I have locally is different than the latest version found on github (specifically *FreeSurfer2CaretConvertAndRegisterNonlinear.sh). *I see that the line referencing *allparameterssulcDRconf *has been commented out in favor of *MSMSulcStrainFinalconf*, however, this file does not appear to exist either. Which version of MSM HOCR is the most recent that should be used? I am using version 2) On a completely other note why aren't these configuration files already included in the HCP pipelines? It seems very burdensome to require each user to mimic the exact version of the MSM binaries that *FreeSurfer2CaretConvertAndRegisterNonlinear.sh *expects. -Tim Timothy Hendrickson Department of Psychiatry University of Minnesota Bioinformatics and Computational Biology M.S. Candidate Office: 612-624-6441 Mobile: 507-259-3434 (texts okay) On Mon, Jan 8, 2018 at 7:16 PM, Glasser, Matthew wrote: > Does the file exist? That might be the old config file it is looking for > suggesting that you don’t have the latest master. > > Peace, > > Matt. > > From: Timothy Hendrickson > Date: Monday, January 8, 2018 at 9:15 AM > To: "hcp-users@humanconnectome.org" > Cc: Matt Glasser > Subject: Re: [HCP-Users] Resting State processing > > Hello all, > > Despite having the most recent version of the hcp pipeline (3.22) and > downloading the MSM configuration binaries, however, I am still receiving > an error when I attempt to run the PreFreeSurfer pipeline with > RegName="MSMSulc". This is the error message I receive: > */opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf: > Couldn't open the file! * > -Tim > > Timothy Hendrickson > Department of Psychiatry > University of Minnesota > Bioinformatics and Computational Biology M.S. Candidate > Office: 612-624-6441 <(612)%20624-6441> > Mobile: 507-259-3434 <(507)%20259-3434> (texts okay) > ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Resting State processing
Does the file exist? That might be the old config file it is looking for suggesting that you don’t have the latest master. Peace, Matt. From: Timothy Hendrickson mailto:hendr...@umn.edu>> Date: Monday, January 8, 2018 at 9:15 AM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" mailto:HCP-Users@humanconnectome.org>> Cc: Matt Glasser mailto:glass...@wustl.edu>> Subject: Re: [HCP-Users] Resting State processing Hello all, Despite having the most recent version of the hcp pipeline (3.22) and downloading the MSM configuration binaries, however, I am still receiving an error when I attempt to run the PreFreeSurfer pipeline with RegName="MSMSulc". This is the error message I receive: /opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf: Couldn't open the file! -Tim Timothy Hendrickson Department of Psychiatry University of Minnesota Bioinformatics and Computational Biology M.S. Candidate Office: 612-624-6441 Mobile: 507-259-3434 (texts okay) ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Resting State processing
Hello all, Despite having the most recent version of the hcp pipeline (3.22) and downloading the MSM configuration binaries, however, I am still receiving an error when I attempt to run the PreFreeSurfer pipeline with RegName="MSMSulc". This is the error message I receive: */opt/local/hcp-pipelines-3.22.0/Pipelines-3.22.0/MSMBinaries/allparameterssulcDRconf: Couldn't open the file!* -Tim Timothy Hendrickson Department of Psychiatry University of Minnesota Bioinformatics and Computational Biology M.S. Candidate Office: 612-624-6441 Mobile: 507-259-3434 (texts okay) ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Resting State processing
Well, I would also recommend rerunning fMRIVolume if you have spin echo field maps as there are some improvements there too. PreFreeSurfer and FreeSurfer would not need to be rerun. Peace, Matt. On 11/29/17, 4:35 PM, "hcp-users-boun...@humanconnectome.org on behalf of Durgerian, Sally" wrote: >Thanks, Matt, >Sorry I hadn’t upgraded to the latest version. Does that mean I have to >re-run all 300 subjects through everything, or can I just re-run the >scripts that involve surfaces? >Sally >On Nov 29, 2017, at 3:37 PM, Glasser, Matthew >mailto:glass...@wustl.edu>> wrote: > >ATTENTION: This email originated from a sender outside of MCW. Use >caution when clicking on links or opening attachments. > > >Make sure you have the latest version of the HCP Pipelines and then this >should work. > >Peace, > >Matt. > >On 11/29/17, 1:11 PM, >"hcp-users-boun...@humanconnectome.org<mailto:hcp-users-bounces@humanconne >ctome.org> on behalf of >Durgerian, Sally" >mailto:hcp-users-bounces@humanconne >ctome.org> on behalf of >sal...@mcw.edu<mailto:sal...@mcw.edu>> wrote: > >Dear HCP gurus; >I¹m writing about step 3 below. I have run some of my own data through >the HCP pipelines, and they have worked well when I use RegName=³FS². >However, when I try to use RegName=³MSMSulc² the script can¹t find this >file: allparameterssulcDRconf >I have been unable to find this file anywhere - not in the >Pipelines-master directory nor in the MSM_HOCR_v2 directory (downloaded >from your link, below). >The MSM_HOCR_v2 directory has the following config files: >config_MSMsulc_pairwise, configMSMSulc_strain, MSMAll_config_STRAIN, and >a file of size 0 named allparameterssulcDRconfStage1to4. >Please advise whether I should use one of the alternate files named >above, or where I can find allparameterssulcDRconf. >Thanks so much, >Sally > >On Jun 30, 2017, at 3:19 PM, Glasser, Matthew >mailto:glass...@wustl.edu><mailto:glass...@wustl.edu>> > wrote: > >You can give MSMSulc and MSMAll a try if you wish using the latest >version of the HCP pipelines and the MSM binary, which is here: >https://urldefense.proofpoint.com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Ee >cr05_MSM-5FHOCR-5Fv2&d=DwIF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4 >Y&r=FnxR7WKbDxh2At2YW0pY1A&m=9fmlyIS3PcRe7TOic3TTMGglw<http://urldefense.p >roofpoint.com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2 >&d=DwIF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2Y >W0pY1A&m=9fmlyIS3PcRe7TOic3TTMGglw>-C41dx0mYnTTsDqRf4&s=OH0o-RNDBVy8LMyJZ7 >Nbpa_62JFY9Igxtm_qcy4SPOk&e=<https://urldefense.proofpoint.com/v2/url?u=ht >tps-3A__urldefense.proofpoint&d=DwIF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFY >PQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=9fmlyIS3PcRe7TOic3TTMGglw-C41dx0mYnT >TsDqRf4&s=0ZARc0ymFOXHlxm7p5sVpIimNSONJkJgS58FZ4kruNA&e=. >com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2&d=DwMF-g& >c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=C >zDp4Ukmm8OuwpwAp9eYjkBN0s8CYTBMIoP_fut4qhA&s=x-zvb7DUgSc7Ck0jE53IXlmoNQSeu >A5YIMIg6jL5Zb4&e=>/ > >Here is the recommended order of pipelines: > >1. PreFreeSurfer >2. FreeSurfer >3. PostFreeSurfer (using MSMSulc) >4. fMRIVolume >5. fMRISurface >6. ICA+FIX >7. MSMAll (Do MSM Surface Registration) >8. GroupDeDrift (Compute and Group drift, can skip if you don¹t want >to) >9. DedriftAndResample (Apply MSMAll) >10. *Global Noise Removal* (not available publicly yet, but will handle >residual global noise in the data without removing the global signal) >11. Resting state analysis > >For a resting state analysis, you could do something like dual regression >and fslnets to make netmats. You could use the HCP¹s multi-modal >parcellation to parcellate the MSMAll aligned dense timeseries into a >parcellated timeseries, and then use fslnets to estimate functional >connectivity (can be either full correlation or partial correlation‹which >is better if step 10 has not been done). You can also use the MIGP >algorithm to combine resting state fMRI data across subjects for group >ICA or group dense functional connectivity. You can use wb_command >-cifti-correlation to compute functional connectivity. > >Peace, > >Matt. > >From: >mailto:hcp-users-bounces@humanconne >ctome.org><mailto:hcp-users-bounces@humanconne >ctome.org<http://ctome.org>>> on behalf of "Fales, Christina L" >mailto:cfa...@northwell.edu><mailto:Cfales@northwell >.edu>> >Date: Friday, June 30, 2017
Re: [HCP-Users] Resting State processing
Thanks, Matt, Sorry I hadn’t upgraded to the latest version. Does that mean I have to re-run all 300 subjects through everything, or can I just re-run the scripts that involve surfaces? Sally On Nov 29, 2017, at 3:37 PM, Glasser, Matthew mailto:glass...@wustl.edu>> wrote: ATTENTION: This email originated from a sender outside of MCW. Use caution when clicking on links or opening attachments. Make sure you have the latest version of the HCP Pipelines and then this should work. Peace, Matt. On 11/29/17, 1:11 PM, "hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org> on behalf of Durgerian, Sally" mailto:hcp-users-boun...@humanconnectome.org> on behalf of sal...@mcw.edu<mailto:sal...@mcw.edu>> wrote: Dear HCP gurus; I¹m writing about step 3 below. I have run some of my own data through the HCP pipelines, and they have worked well when I use RegName=³FS². However, when I try to use RegName=³MSMSulc² the script can¹t find this file: allparameterssulcDRconf I have been unable to find this file anywhere - not in the Pipelines-master directory nor in the MSM_HOCR_v2 directory (downloaded from your link, below). The MSM_HOCR_v2 directory has the following config files: config_MSMsulc_pairwise, configMSMSulc_strain, MSMAll_config_STRAIN, and a file of size 0 named allparameterssulcDRconfStage1to4. Please advise whether I should use one of the alternate files named above, or where I can find allparameterssulcDRconf. Thanks so much, Sally On Jun 30, 2017, at 3:19 PM, Glasser, Matthew mailto:glass...@wustl.edu><mailto:glass...@wustl.edu>> wrote: You can give MSMSulc and MSMAll a try if you wish using the latest version of the HCP pipelines and the MSM binary, which is here: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2&d=DwIF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=9fmlyIS3PcRe7TOic3TTMGglw<http://urldefense.proofpoint.com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2&d=DwIF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=9fmlyIS3PcRe7TOic3TTMGglw>-C41dx0mYnTTsDqRf4&s=OH0o-RNDBVy8LMyJZ7Nbpa_62JFY9Igxtm_qcy4SPOk&e=<https://urldefense.proofpoint.com/v2/url?u=https-3A__urldefense.proofpoint&d=DwIF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=9fmlyIS3PcRe7TOic3TTMGglw-C41dx0mYnTTsDqRf4&s=0ZARc0ymFOXHlxm7p5sVpIimNSONJkJgS58FZ4kruNA&e=. com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2&d=DwMF-g& c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=C zDp4Ukmm8OuwpwAp9eYjkBN0s8CYTBMIoP_fut4qhA&s=x-zvb7DUgSc7Ck0jE53IXlmoNQSeu A5YIMIg6jL5Zb4&e=>/ Here is the recommended order of pipelines: 1. PreFreeSurfer 2. FreeSurfer 3. PostFreeSurfer (using MSMSulc) 4. fMRIVolume 5. fMRISurface 6. ICA+FIX 7. MSMAll (Do MSM Surface Registration) 8. GroupDeDrift (Compute and Group drift, can skip if you don¹t want to) 9. DedriftAndResample (Apply MSMAll) 10. *Global Noise Removal* (not available publicly yet, but will handle residual global noise in the data without removing the global signal) 11. Resting state analysis For a resting state analysis, you could do something like dual regression and fslnets to make netmats. You could use the HCP¹s multi-modal parcellation to parcellate the MSMAll aligned dense timeseries into a parcellated timeseries, and then use fslnets to estimate functional connectivity (can be either full correlation or partial correlation‹which is better if step 10 has not been done). You can also use the MIGP algorithm to combine resting state fMRI data across subjects for group ICA or group dense functional connectivity. You can use wb_command -cifti-correlation to compute functional connectivity. Peace, Matt. From: mailto:hcp-users-boun...@humanconnectome.org><mailto:hcp-users-bounces@humanconne ctome.org<http://ctome.org>>> on behalf of "Fales, Christina L" mailto:cfa...@northwell.edu><mailto:cfa...@northwell.edu>> Date: Friday, June 30, 2017 at 12:30 PM To: "'HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>mailto:HCP-Users@humanconnectome.org>>'" mailto:HCP-Users@humanconnectome.org><mailto:HCP-Users@humanconnectome.org>> Cc: "Fales, Christina L" mailto:cfa...@northwell.edu><mailto:cfa...@northwell.edu>> Subject: [HCP-Users] Resting State processing Hi HCP gurus: I¹ve been trying to adapt the HCP pipeline for use in our group, and having trouble with the tools for resting state processing. The pipeline¹s Example programs are super helpful for illustrating calls to the minimal preprocessing and the Task-fMRI tools. However the resting-fMRI tools are organ
Re: [HCP-Users] Resting State processing
Make sure you have the latest version of the HCP Pipelines and then this should work. Peace, Matt. On 11/29/17, 1:11 PM, "hcp-users-boun...@humanconnectome.org on behalf of Durgerian, Sally" wrote: >Dear HCP gurus; >I¹m writing about step 3 below. I have run some of my own data through >the HCP pipelines, and they have worked well when I use RegName=³FS². >However, when I try to use RegName=³MSMSulc² the script can¹t find this >file: allparameterssulcDRconf >I have been unable to find this file anywhere - not in the >Pipelines-master directory nor in the MSM_HOCR_v2 directory (downloaded >from your link, below). >The MSM_HOCR_v2 directory has the following config files: >config_MSMsulc_pairwise, configMSMSulc_strain, MSMAll_config_STRAIN, and >a file of size 0 named allparameterssulcDRconfStage1to4. >Please advise whether I should use one of the alternate files named >above, or where I can find allparameterssulcDRconf. >Thanks so much, >Sally > >On Jun 30, 2017, at 3:19 PM, Glasser, Matthew >mailto:glass...@wustl.edu>> wrote: > >You can give MSMSulc and MSMAll a try if you wish using the latest >version of the HCP pipelines and the MSM binary, which is here: >https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v2<https://urldefense.proofpoint. >com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2&d=DwMF-g& >c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=C >zDp4Ukmm8OuwpwAp9eYjkBN0s8CYTBMIoP_fut4qhA&s=x-zvb7DUgSc7Ck0jE53IXlmoNQSeu >A5YIMIg6jL5Zb4&e=>/ > >Here is the recommended order of pipelines: > > 1. PreFreeSurfer > 2. FreeSurfer > 3. PostFreeSurfer (using MSMSulc) > 4. fMRIVolume > 5. fMRISurface > 6. ICA+FIX > 7. MSMAll (Do MSM Surface Registration) > 8. GroupDeDrift (Compute and Group drift, can skip if you don¹t want >to) > 9. DedriftAndResample (Apply MSMAll) > 10. *Global Noise Removal* (not available publicly yet, but will handle >residual global noise in the data without removing the global signal) > 11. Resting state analysis > >For a resting state analysis, you could do something like dual regression >and fslnets to make netmats. You could use the HCP¹s multi-modal >parcellation to parcellate the MSMAll aligned dense timeseries into a >parcellated timeseries, and then use fslnets to estimate functional >connectivity (can be either full correlation or partial correlation‹which >is better if step 10 has not been done). You can also use the MIGP >algorithm to combine resting state fMRI data across subjects for group >ICA or group dense functional connectivity. You can use wb_command >-cifti-correlation to compute functional connectivity. > >Peace, > >Matt. > >From: >mailto:hcp-users-bounces@humanconne >ctome.org>> on behalf of "Fales, Christina L" >mailto:cfa...@northwell.edu>> >Date: Friday, June 30, 2017 at 12:30 PM >To: >"'HCP-Users@humanconnectome.org'" >mailto:HCP-Users@humanconnectome.org>> >Cc: "Fales, Christina L" >mailto:cfa...@northwell.edu>> >Subject: [HCP-Users] Resting State processing > >Hi HCP gurus: >I¹ve been trying to adapt the HCP pipeline for use in our group, and >having trouble with the tools for resting state processing. The >pipeline¹s Example programs are super helpful for illustrating calls to >the minimal preprocessing and the Task-fMRI tools. However the >resting-fMRI tools are organized differently, with no example calling >program provided. I wonder if I could get a few tips? >I am using pipeline version v3.22.0-beta.2, and I have so far >successfully run pipeline modules on HCP subjects as well as our own: >PreFreesurferPipeline.sh >FreesurferPipeline.sh >PostFreesurferPipeline.sh >GenericfMRIVolumeProcessingPipeline.sh >GenericfMRISurfaceProcessingPipeline.sh >ICA-FIX >I know that after ICA-Fix I could continue with a group analysis using >Dual Regression and FSLnets. But how to proceed if one wanted to do a >seed-based analysis? I¹m not sure I see the purpose of PostFix, >ReApplyFix and RestingStateStats. They rely on compiled matlab code, so >it is hard to figure out what they are actually doing. >Regardless, I tried running RestingStateStats, but it triggered an error >when it could not find a file apparently created by MSMSulc. (I assume >this is because I ran earlier parts of the pipeline with RegName=²FS²). >When I tried to rerun PostFreesurferPipeline.sh with RegName=²MSMSulc², >it seems that our version of the pipeline does not include an MSM binary. >I have searched the HCP website but don¹t see where this binary is >available. Alternatively, if I download the available MSMAll, can it be >used with
Re: [HCP-Users] Resting State processing
Dear HCP gurus; I’m writing about step 3 below. I have run some of my own data through the HCP pipelines, and they have worked well when I use RegName=“FS”. However, when I try to use RegName=“MSMSulc” the script can’t find this file: allparameterssulcDRconf I have been unable to find this file anywhere - not in the Pipelines-master directory nor in the MSM_HOCR_v2 directory (downloaded from your link, below). The MSM_HOCR_v2 directory has the following config files: config_MSMsulc_pairwise, configMSMSulc_strain, MSMAll_config_STRAIN, and a file of size 0 named allparameterssulcDRconfStage1to4. Please advise whether I should use one of the alternate files named above, or where I can find allparameterssulcDRconf. Thanks so much, Sally On Jun 30, 2017, at 3:19 PM, Glasser, Matthew mailto:glass...@wustl.edu>> wrote: You can give MSMSulc and MSMAll a try if you wish using the latest version of the HCP pipelines and the MSM binary, which is here: https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v2<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.doc.ic.ac.uk_-7Eecr05_MSM-5FHOCR-5Fv2&d=DwMF-g&c=aFamLAsxMIDYjNglYHTMV0iqFn3z4pVFYPQkjgspw4Y&r=FnxR7WKbDxh2At2YW0pY1A&m=CzDp4Ukmm8OuwpwAp9eYjkBN0s8CYTBMIoP_fut4qhA&s=x-zvb7DUgSc7Ck0jE53IXlmoNQSeuA5YIMIg6jL5Zb4&e=>/ Here is the recommended order of pipelines: 1. PreFreeSurfer 2. FreeSurfer 3. PostFreeSurfer (using MSMSulc) 4. fMRIVolume 5. fMRISurface 6. ICA+FIX 7. MSMAll (Do MSM Surface Registration) 8. GroupDeDrift (Compute and Group drift, can skip if you don’t want to) 9. DedriftAndResample (Apply MSMAll) 10. *Global Noise Removal* (not available publicly yet, but will handle residual global noise in the data without removing the global signal) 11. Resting state analysis For a resting state analysis, you could do something like dual regression and fslnets to make netmats. You could use the HCP’s multi-modal parcellation to parcellate the MSMAll aligned dense timeseries into a parcellated timeseries, and then use fslnets to estimate functional connectivity (can be either full correlation or partial correlation—which is better if step 10 has not been done). You can also use the MIGP algorithm to combine resting state fMRI data across subjects for group ICA or group dense functional connectivity. You can use wb_command -cifti-correlation to compute functional connectivity. Peace, Matt. From: mailto:hcp-users-boun...@humanconnectome.org>> on behalf of "Fales, Christina L" mailto:cfa...@northwell.edu>> Date: Friday, June 30, 2017 at 12:30 PM To: "'HCP-Users@humanconnectome.org'" mailto:HCP-Users@humanconnectome.org>> Cc: "Fales, Christina L" mailto:cfa...@northwell.edu>> Subject: [HCP-Users] Resting State processing Hi HCP gurus: I’ve been trying to adapt the HCP pipeline for use in our group, and having trouble with the tools for resting state processing. The pipeline’s Example programs are super helpful for illustrating calls to the minimal preprocessing and the Task-fMRI tools. However the resting-fMRI tools are organized differently, with no example calling program provided. I wonder if I could get a few tips? I am using pipeline version v3.22.0-beta.2, and I have so far successfully run pipeline modules on HCP subjects as well as our own: PreFreesurferPipeline.sh FreesurferPipeline.sh PostFreesurferPipeline.sh GenericfMRIVolumeProcessingPipeline.sh GenericfMRISurfaceProcessingPipeline.sh ICA-FIX I know that after ICA-Fix I could continue with a group analysis using Dual Regression and FSLnets. But how to proceed if one wanted to do a seed-based analysis? I’m not sure I see the purpose of PostFix, ReApplyFix and RestingStateStats. They rely on compiled matlab code, so it is hard to figure out what they are actually doing. Regardless, I tried running RestingStateStats, but it triggered an error when it could not find a file apparently created by MSMSulc. (I assume this is because I ran earlier parts of the pipeline with RegName=”FS”). When I tried to rerun PostFreesurferPipeline.sh with RegName=”MSMSulc”, it seems that our version of the pipeline does not include an MSM binary. I have searched the HCP website but don’t see where this binary is available. Alternatively, if I download the available MSMAll, can it be used with pipeline version 3.22? Unfortunately with all of the excellent documentation on the HCP website, there is a dearth of *high-level* guidance on how to proceed with resting-state processing. I’d be grateful for any insights… Thanks, Christina Fales ___ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users<https://urldefense.proofpoint.com/v2/url?u=http-3A__lists.humanconnectome.org_m
Re: [HCP-Users] Resting State processing
You can give MSMSulc and MSMAll a try if you wish using the latest version of the HCP pipelines and the MSM binary, which is here: https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v2/ Here is the recommended order of pipelines: 1. PreFreeSurfer 2. FreeSurfer 3. PostFreeSurfer (using MSMSulc) 4. fMRIVolume 5. fMRISurface 6. ICA+FIX 7. MSMAll (Do MSM Surface Registration) 8. GroupDeDrift (Compute and Group drift, can skip if you don’t want to) 9. DedriftAndResample (Apply MSMAll) 10. *Global Noise Removal* (not available publicly yet, but will handle residual global noise in the data without removing the global signal) 11. Resting state analysis For a resting state analysis, you could do something like dual regression and fslnets to make netmats. You could use the HCP’s multi-modal parcellation to parcellate the MSMAll aligned dense timeseries into a parcellated timeseries, and then use fslnets to estimate functional connectivity (can be either full correlation or partial correlation—which is better if step 10 has not been done). You can also use the MIGP algorithm to combine resting state fMRI data across subjects for group ICA or group dense functional connectivity. You can use wb_command -cifti-correlation to compute functional connectivity. Peace, Matt. From: mailto:hcp-users-boun...@humanconnectome.org>> on behalf of "Fales, Christina L" mailto:cfa...@northwell.edu>> Date: Friday, June 30, 2017 at 12:30 PM To: "'HCP-Users@humanconnectome.org'" mailto:HCP-Users@humanconnectome.org>> Cc: "Fales, Christina L" mailto:cfa...@northwell.edu>> Subject: [HCP-Users] Resting State processing Hi HCP gurus: I’ve been trying to adapt the HCP pipeline for use in our group, and having trouble with the tools for resting state processing. The pipeline’s Example programs are super helpful for illustrating calls to the minimal preprocessing and the Task-fMRI tools. However the resting-fMRI tools are organized differently, with no example calling program provided. I wonder if I could get a few tips? I am using pipeline version v3.22.0-beta.2, and I have so far successfully run pipeline modules on HCP subjects as well as our own: PreFreesurferPipeline.sh FreesurferPipeline.sh PostFreesurferPipeline.sh GenericfMRIVolumeProcessingPipeline.sh GenericfMRISurfaceProcessingPipeline.sh ICA-FIX I know that after ICA-Fix I could continue with a group analysis using Dual Regression and FSLnets. But how to proceed if one wanted to do a seed-based analysis? I’m not sure I see the purpose of PostFix, ReApplyFix and RestingStateStats. They rely on compiled matlab code, so it is hard to figure out what they are actually doing. Regardless, I tried running RestingStateStats, but it triggered an error when it could not find a file apparently created by MSMSulc. (I assume this is because I ran earlier parts of the pipeline with RegName=”FS”). When I tried to rerun PostFreesurferPipeline.sh with RegName=”MSMSulc”, it seems that our version of the pipeline does not include an MSM binary. I have searched the HCP website but don’t see where this binary is available. Alternatively, if I download the available MSMAll, can it be used with pipeline version 3.22? Unfortunately with all of the excellent documentation on the HCP website, there is a dearth of *high-level* guidance on how to proceed with resting-state processing. I’d be grateful for any insights… Thanks, Christina Fales ___ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users The information contained in this electronic e-mail transmission and any attachments are intended only for the use of the individual or entity to whom or to which it is addressed, and may contain information that is privileged, confidential and exempt from disclosure under applicable law. If the reader of this communication is not the intended recipient, or the employee or agent responsible for delivering this communication to the intended recipient, you are hereby notified that any dissemination, distribution, copying or disclosure of this communication and any attachment is strictly prohibited. If you have received this transmission in error, please notify the sender immediately by telephone and electronic mail, and delete the original communication and any attachment from any computer, server or other electronic recording or storage device or medium. Receipt by anyone other than the intended recipient is not a waiver of any attorney-client, physician-patient or other privilege. ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
[HCP-Users] Resting State processing
Hi HCP gurus: I've been trying to adapt the HCP pipeline for use in our group, and having trouble with the tools for resting state processing. The pipeline's Example programs are super helpful for illustrating calls to the minimal preprocessing and the Task-fMRI tools. However the resting-fMRI tools are organized differently, with no example calling program provided. I wonder if I could get a few tips? I am using pipeline version v3.22.0-beta.2, and I have so far successfully run pipeline modules on HCP subjects as well as our own: PreFreesurferPipeline.sh FreesurferPipeline.sh PostFreesurferPipeline.sh GenericfMRIVolumeProcessingPipeline.sh GenericfMRISurfaceProcessingPipeline.sh ICA-FIX I know that after ICA-Fix I could continue with a group analysis using Dual Regression and FSLnets. But how to proceed if one wanted to do a seed-based analysis? I'm not sure I see the purpose of PostFix, ReApplyFix and RestingStateStats. They rely on compiled matlab code, so it is hard to figure out what they are actually doing. Regardless, I tried running RestingStateStats, but it triggered an error when it could not find a file apparently created by MSMSulc. (I assume this is because I ran earlier parts of the pipeline with RegName="FS"). When I tried to rerun PostFreesurferPipeline.sh with RegName="MSMSulc", it seems that our version of the pipeline does not include an MSM binary. I have searched the HCP website but don't see where this binary is available. Alternatively, if I download the available MSMAll, can it be used with pipeline version 3.22? Unfortunately with all of the excellent documentation on the HCP website, there is a dearth of *high-level* guidance on how to proceed with resting-state processing. I'd be grateful for any insights... Thanks, Christina Fales The information contained in this electronic e-mail transmission and any attachments are intended only for the use of the individual or entity to whom or to which it is addressed, and may contain information that is privileged, confidential and exempt from disclosure under applicable law. If the reader of this communication is not the intended recipient, or the employee or agent responsible for delivering this communication to the intended recipient, you are hereby notified that any dissemination, distribution, copying or disclosure of this communication and any attachment is strictly prohibited. If you have received this transmission in error, please notify the sender immediately by telephone and electronic mail, and delete the original communication and any attachment from any computer, server or other electronic recording or storage device or medium. Receipt by anyone other than the intended recipient is not a waiver of any attorney-client, physician-patient or other privilege. ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
