<html xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=us-ascii">
<meta name="Generator" content="Microsoft Word 15 (filtered medium)">
<style><!--
/* Font Definitions */
@font-face
{font-family:Helvetica;
panose-1:2 11 6 4 2 2 2 2 2 4;}
@font-face
{font-family:"Cambria Math";
panose-1:2 4 5 3 5 4 6 3 2 4;}
@font-face
{font-family:DengXian;
panose-1:2 1 6 0 3 1 1 1 1 1;}
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
@font-face
{font-family:"\@DengXian";
panose-1:2 1 6 0 3 1 1 1 1 1;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0in;
font-size:11.0pt;
font-family:"Calibri",sans-serif;}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:blue;
text-decoration:underline;}
span.EmailStyle21
{mso-style-type:personal-compose;
font-family:"Calibri",sans-serif;
color:windowtext;}
.MsoChpDefault
{mso-style-type:export-only;
font-size:10.0pt;}
@page WordSection1
{size:8.5in 11.0in;
margin:1.0in 1.0in 1.0in 1.0in;}
div.WordSection1
{page:WordSection1;}
--></style>
</head>
<body lang="EN-US" link="blue" vlink="purple" style="word-wrap:break-word">
<div class="WordSection1">
<p class="MsoNormal">Thank you, Jan-Mathijs,<o:p></o:p></p>
<p class="MsoNormal">Now the problem with the path was solved and the scripted was started running. Unfortunately, another problem occurred. The error message showed “Error: name of file: .L.sulc.native.shape.nii; path to file: >>>freesurfer/7.4.1/subjects//sub-001///workbench;
file does not exist”<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I copied the templates (MNI152….gii and L(R).4(8/164)K.gii) into the /surf (also /workbench, directory). I wonder if the templates should be copied into other directory or there are other problems with “path”.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Zhen<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<div style="border:none;border-top:solid #E1E1E1 1.0pt;padding:3.0pt 0in 0in 0in">
<p class="MsoNormal"><b>From:</b> fieldtrip <fieldtrip-bounces@science.ru.nl> <b>
On Behalf Of </b>Schoffelen, J.M. (Jan Mathijs) via fieldtrip<br>
<b>Sent:</b> Thursday, January 30, 2025 3:19 AM<br>
<b>To:</b> FieldTrip discussion list <fieldtrip@science.ru.nl><br>
<b>Cc:</b> Schoffelen, J.M. (Jan Mathijs) <janmathijs.schoffelen@donders.ru.nl><br>
<b>Subject:</b> [EXTERNAL] Re: [FieldTrip] Source analysis web_command<o:p></o:p></p>
</div>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I agree, you need to sort out your path, and you need to ensure that the shell script has the executable permission flag switched on. Your system administrator/Stackoverflow/google/chatGPT/Deepseek should be able to help you on your way
I think. <o:p></o:p></p>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">Good luck,<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal">Jan-Mathijs<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<div>
<p class="MsoNormal"><br>
<br>
<o:p></o:p></p>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<p class="MsoNormal">On 29 Jan 2025, at 21:07, Ni, Zhen (NIH/NINDS) [C] via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a>> wrote:<o:p></o:p></p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<div>
<p class="MsoNormal">I’m at the second step for creating a source model for source reconstruction: creation of mesh using HCP workbench. I installed Connectome Workbench on my Mac (M3). In the first step a series of products were generated by Freesurfer. The
problem is that they cannot be read by the Workbench. I can open wb_view but when I input the command (ft_freesurferscript.sh) from the terminal, it showed "command cannot be found". I tested other commands from the terminal. Even wb_command does not work.
I wonder if the environment setting is not correct.<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<p class="MsoNormal"><span style="font-size:10.5pt;font-family:"Helvetica",sans-serif">_______________________________________________<br>
fieldtrip mailing list<br>
</span><a href="https://eur01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmailman.science.ru.nl%2Fmailman%2Flistinfo%2Ffieldtrip&data=05%7C02%7Cfieldtrip%40science.ru.nl%7C0a9fda79e6e249e6ffed08dd45434875%7C084578d9400d4a5aa7c7e76ca47af400%7C1%7C0%7C638742877478488064%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=DXJ%2F%2BSEYKJ04%2Bb5WsSkBUjfDyUOwbqXyTq7wmTw7YLI%3D&reserved=0" originalSrc="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip" shash="vhtrireb00TQbepI4SLwxj4vDT9OLqA/MJeI0NzV+v20WH3Xd/g4/cLTWdGWhNVDt6EqUT/FuycI23Jbn5NNztN1pQFIl7g8IawKZsFtTz8q2qpiRPLOJzbk91sV+iCUMqCy4FQynUmh+xAgyxqXnyMgRq5iYl/NaaVw/UcVBiE="><span style="font-size:10.5pt;font-family:"Helvetica",sans-serif">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</span></a><span style="font-size:10.5pt;font-family:"Helvetica",sans-serif"><br>
</span><a href="https://eur01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.1371%2Fjournal.pcbi.1002202&data=05%7C02%7Cfieldtrip%40science.ru.nl%7C0a9fda79e6e249e6ffed08dd45434875%7C084578d9400d4a5aa7c7e76ca47af400%7C1%7C0%7C638742877478518321%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=B%2FaQKUvg0g7gl7Cte0wCg4kHnJ15gqPw%2F1cpePBRqXo%3D&reserved=0" originalSrc="https://doi.org/10.1371/journal.pcbi.1002202" shash="OCDd5CeJ/0743N6Ep5C5llWhdihU6B7RliOh+tUsL0O2E6fhdbT8LkeiR5Yxi17Aq+vV9xwHORZlg5ViRc7qHm1ToUhXqAMv5gsHqp1E8MyFVsrzvtb+x5EnEMC6OElwkCgOq/OjK5p6POZoJ6nabYJ6WgtPJZENVkuOcytQlZQ="><span style="font-size:10.5pt;font-family:"Helvetica",sans-serif">https://doi.org/10.1371/journal.pcbi.1002202</span></a><o:p></o:p></p>
</div>
</blockquote>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
</div>
<div style="border:solid #9C6500 1.0pt;padding:2.0pt 2.0pt 2.0pt 2.0pt">
<p class="MsoNormal" style="line-height:12.0pt;background:#FFEB9C"><span style="font-size:10.0pt;color:#9C6500">CAUTION:</span><span style="font-size:10.0pt;color:black"> This email originated from outside of the organization. Do not click links or open attachments
unless you recognize the sender and are confident the content is safe.<o:p></o:p></span></p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
</body>
</html>