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Re: [Seg3D] Seg3D Commandline Assistance

Chronological Thread 
  • From: Elizabeth Jurrus <>
  • To: Anthony Kolasny <>
  • Cc:
  • Subject: Re: [Seg3D] Seg3D Commandline Assistance
  • Date: Tue, 16 Feb 2016 13:46:01 -0700

Hi Anthony,

We offer very minimal support for old versions of Seg3D... Seg3D 2.x has much more flexible options for importing segmentations. Can we offer some help in suggestions for migrating your data to the new version?

- liz

On 02/16/2016 12:00 PM, Anthony Kolasny wrote:

I'm looking for some info about Seg3D 1.12.0. Below is the
message that I sent to


-------------------------- message ---------------------------------


Our group is using an old version of Seg3D. We're using version 1.12.0.

Is there a way to open a volume and import a segmentation mask
from the commandline? Are there Seg3D environment variables?
I wasn't able to find documentation on this version to guide my
exploration of the application.

It seems that I'm only able to start Seg3D if I 'cd' into the
bin directory. I was hoping to set some environment variables
to allow uses to run Seg3D with data local to their path.


Anthony Kolasny
Center for Imaging Science phone:410.516.4278
Clark Hall rm: 305 FAX:410.516.4594
Johns Hopkins University
3400 N. Charles Street
Baltimore, Maryland 21218

  • Re: [Seg3D] Seg3D Commandline Assistance, Elizabeth Jurrus, 02/16/2016

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