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  • Apr 16 2020 10:30

    liadomide on neotraits_py3

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  • Mar 07 2020 00:57
  • Mar 05 2020 23:40
    Taehoon-doc starred the-virtual-brain/tvb-library
  • Feb 06 2020 18:03
    maedoc commented #74
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  • Dec 28 2019 17:30
    liadomide closed #101
  • Dec 28 2019 17:24
    liadomide closed #91
Jan Fousek
@i-Zaak
it loaded for a while for me too...
Zhenbo Li
@Endle
Excuse me, is anyone trying to run TVB on Sagemath?
marmaduke woodman
@maedoc
hey, this is marmaduke
can you send a gist with the errors you got?
Zhenbo Li
@Endle
wait a minute please
Zhenbo Li
@Endle
@maedoc Hi, that is the first log: https://gist.github.com/Endle/a1a81316e3bee865d4b3
marmaduke woodman
@maedoc
oh noes! I'm an idiot
it should be sys.path.append(...)
Zhenbo Li
@Endle
Try 2:
%pylab inline
import sys
sys.path.append('/projects/f17095cb-9e19-4f80-84a1-c235978d4d50/tvb-library')
sys.path.append('/projects/f17095cb-9e19-4f80-84a1-c235978d4d50/tvb-library')
marmaduke woodman
@maedoc
sorry I completely bugged on that one
Zhenbo Li
@Endle
I guess I'm the only one who's trying on SageMath lol?
Could you please explain "Copy the gdist module to your project." a little more?
I don't know how to fix the dependency on Sagemath
Zhenbo Li
@Endle
@maedoc Also, I found that sys.path.append('tvb-library') may not be enough, so does '$HOME/tvb-library')
I had to use sys.path.append('/projects/f17095cb-9e19-4f80-84a1-c235978d4d50/tvb-library')
marmaduke woodman
@maedoc
I'm trying to get used to SageMathCloud (SMC) as well
the gdist.so is a file I shared from my project, and in principle, the link should let you copy the file to your project
Zhenbo Li
@Endle
@maedoc well, I succeeded in running Tutorial_Region_Stimuli through
marmaduke woodman
@maedoc
and you need to add the folder containing gdist.so to the python path
ok
super
Zhenbo Li
@Endle
I didn't copy that .so file. I cloned https://github.com/the-virtual-brain/tvb-geodesic.git
Then I ran python setup.py install --user in tvb-geodesic
marmaduke woodman
@maedoc
ok. if you can import gdistin python, then you're good to go
Zhenbo Li
@Endle
Add gdist.so failed. It said invalid ELF header. Anyway, this problem has been fixed
marmaduke woodman
@maedoc
sorry it's been a pain to get TVB running, but we've never seen some of the issues you reported, which is why I wondered what Linux you have
ha!
did you try pip install gdist ?
Zhenbo Li
@Endle
I'm using Fedora 21, 64 bit workstation
marmaduke woodman
@maedoc
ok
Zhenbo Li
@Endle
Tried. pip is not allowed on SageMath
marmaduke woodman
@maedoc
yep I just saw that, it should be pip install --user gdist
which works
Zhenbo Li
@Endle
I'm wondering why I can't run TVB on my own computer to. Maybe adding more assert in the python code can help?
Really? ~$ pip install --user numpy The program 'pip' is currently not installed. To run 'pip' please ask your administrator to install the package 'python-pip'
marmaduke woodman
@maedoc
hm that's funny. I opened a terminal and started ipython then wrote !pip install --user gdist and it works.
which pip in bash shows nothing and !which pip in ipython shows an installed version... as I said, I don't know SMC very well
Zhenbo Li
@Endle
So interesting... Seems that I can work on the next goal?
marmaduke woodman
@maedoc
What have you done so far?
(sorry, working on several projects at once..)
Zhenbo Li
@Endle
Just trying to run the demo mentioned in the mail...
marmaduke woodman
@maedoc
the tutorials with TVB?
Zhenbo Li
@Endle
yep
marmaduke woodman
@maedoc
ok, let me know if you run into any problems or have questions. Just a reminder, it's important to submit an application to GSoC Melange as soon as you've got one ready. Feel free to send a draft to me if you like
Zhenbo Li
@Endle
thank you very much. I've finished a draft proposal few hours before, and I'll send it to you soon.
marmaduke woodman
@maedoc
tomorrow is fine ;)
Zhenbo Li
@Endle
Excuse me, is there any small jobs for TVB? So I can be familiar with TVB code faster? Thank you
Zhenbo Li
@Endle
@maedoc I've compiled XPPAUT on SageMath successfully, but I'm wondering if it is the best choice
marmaduke woodman
@maedoc
@endle do you have an IRC client ? I'd actually prefer that to gitter (which we were just trying out, no one uses this chat room)
meet me in #tvb on freenode
Zhenbo Li
@Endle
@maedoc well, it seems that #tvb is not crowd either