windows cannot recognize sudo command

[olivia930709]

Hello,
I'm trying to install wishbone and its dependencies using ' sudo pip3 install . ' following the instruction. However, the prompt says 'sudo is not a external or internal command'. So I may I ask is there any workaround for windows user?

Thanks a lot!
Olivia

[ManuSetty]

sudo is specific to Linux / Unix based systems. I believe you should be able to install on Windows without using the sudo: pip3 install . . If you see permissions issue, you can try pip3 install . --user

[olivia930709]

Thank you so much for your reply ! I typed 'pip3 install . ' but it said pip3 is not recognized. So I changed it into 'pip install .' , is that okay?
Anyway, I still got some error at the end, saying files not found. So I'm wondering if there some details I missed, like do I need to change the directory before I type 'git clone git://github.com/manusetty/wishbone.git'?

Many thanks!
Olivia

[ManuSetty]

Wishbone needs python3. So if your pip is pointing to python3, it should work. Otherwise you will need to install python3. You do not need to be in specific directory to clone the repository, but you have to change to the location you have cloned for installation

[olivia930709]

Thank you so much for your kind reply! I did exactly as you put in the README.md. However, here still came some errors as the screenshot shows. Would you mind take a look and give me some suggestions about it ? Many thanks! Olivia Manu Setty <notifications@github.com> 于2019年1月24日周四 下午1:06写道：

…

Wishbone needs python3. So if your pip is pointing to python3, it should work. Otherwise you will need to install python3. You do not need to be in specific directory to clone the repository, but you have to change to the location you have cloned for installation — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#64 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/Ai-3R03GCGLG8_MStMXOdOSLUrGDpYvMks5vGgQsgaJpZM4aP_ec> .

[ManuSetty]

The screenshot did not come through. Can you send it again.

[olivia930709]

How about now?

[ManuSetty]

Unfortunately, I do not have access to a Windows environment to test this. This looks more an issue with bhtsne_wrapper rather than Wishbone.

[olivia930709]

So do you have any suggestions I can at least give it a try? Many thanks!

…

On Wed, Feb 13, 2019 at 10:30 PM Manu Setty ***@***.***> wrote: Unfortunately, I do not have access to a Windows environment to test this. This looks more an issue with bhtsne_wrapper rather than Wishbone. — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#64 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/Ai-3R5xS98WBlUE3erbOUm2zJD-qdWtPks5vNCGOgaJpZM4aP_ec> .

[StarXian]

Processing /home/jiaxian/ehbio/wishbone
Collecting Cython (from wishbone==0.4.2)
Downloading https://files.pythonhosted.org/packages/e7/bd/59054534d09830394470c14e4dd4a2e8fa64ac14559095a044208bf34c18/Cython-0.29.7-cp35-cp35m-manylinux1_x86_64.whl (2.0MB)
100% |████████████████████████████████| 2.0MB 514kB/s
Collecting bhtsne (from wishbone==0.4.2)
Downloading https://files.pythonhosted.org/packages/5b/32/3e25093337ab8811e0c3ebd89ad60fd6ca19ef9d7cebb645454f2bc59eaf/bhtsne-0.1.9.tar.gz (86kB)
100% |████████████████████████████████| 92kB 6.6MB/s
Complete output from command python setup.py egg_info:
Traceback (most recent call last):
File "", line 1, in
File "/tmp/pip-build-u1nolrp3/bhtsne/setup.py", line 4, in
from Cython.Build import cythonize
ImportError: No module named 'Cython'

----------------------------------------

Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-u1nolrp3/bhtsne/

[ManuSetty]

Please first try to install Cython using (pip3 install Cython) and then install Wishbone. We will update the dependencies.

[ManuSetty]

That file is only for the sample data. You don't have to generate that file for your data - you can just specify the number of waypoints (the default option should suffice)