External Email - Use Caution
That's weird. In the echo below, is that from your shell or on the HCP? When you source the FS environment, that variable will be set.
On 5/12/2023 5:33 AM, Krystal Xiwing Yau wrote:
External Email - Use Caution
Dear FreeSurfer expoerts,
I am running recon-all for the subject on a HPC. It exited with error when talairach was running - it indicated "MINC_BIN_DIR: Undefined variable". The log file is attached to this email.
I tried to look up the directory, which contains MINC_BIN_DIR as indicated on the https://secure-web.cisco.com/1Yi_rx3_ryx7Z_5U9Ro-U7Ztjy451lAhdmjzkMKbcgnaOryly22-jgU15upXMCDwhN7rCKUIx8fQlYSfQPlLd-pPd3G9E4tgLdtUGxIjQLS6io1g6lGqUeJV-4rJvteW_vA9dv9ct_wrIlMSVMMY1Wau7Ch4QiljAtc8p10M8CO1ECOvPp49pX9YUy6zgOlDa-FjJ8g7oFRFigjX9WLaJ8jXCp-XYml0EDexGHCBHRMt9QO64li3sTJKh4k2h7LAZkVb0Zb8BW6RTSHbzNVJSXEp-dLkCqpvbRrKtXQbX6ONS2t-I0Mva3GTfkdJm1Urd6fk2854W0ok7dIZ2WYtMcQ/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg01633.htmlforum https://secure-web.cisco.com/1Yi_rx3_ryx7Z_5U9Ro-U7Ztjy451lAhdmjzkMKbcgnaOryly22-jgU15upXMCDwhN7rCKUIx8fQlYSfQPlLd-pPd3G9E4tgLdtUGxIjQLS6io1g6lGqUeJV-4rJvteW_vA9dv9ct_wrIlMSVMMY1Wau7Ch4QiljAtc8p10M8CO1ECOvPp49pX9YUy6zgOlDa-FjJ8g7oFRFigjX9WLaJ8jXCp-XYml0EDexGHCBHRMt9QO64li3sTJKh4k2h7LAZkVb0Zb8BW6RTSHbzNVJSXEp-dLkCqpvbRrKtXQbX6ONS2t-I0Mva3GTfkdJm1Urd6fk2854W0ok7dIZ2WYtMcQ/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg01633.html. When I type the command, there was none:
echo $MINC_BIN_DIR
Any advise would be highly appreciated. Lots of thanks.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
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