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Again, thanks for your persistence. In the end, you may find the learning experience well worth it!
3DNA should work if you have installed MinGW/MSYS properly. Given the difficult you experienced with installing Cygwin, let's focus on MinGW/MSYS. To get you up and running ASAP, please answer the following questions:
- Which version of Windows are you using?
- Where have you put the 3DNA v2.3 download (i.e. file x3dna-v2.3-mingw-win.tar.gz)?
- Have you extracted the tarball file into its folder x3dna-v2.3?
- In your MinGW/MSYS shell, what do you get with the command: "tar"?
Xiang-Jun
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It is really kind of you!
1,I have two laptop, one is window7, another is window10, I mainly used window7, but I can try both if needed.
2,I put the download file both in C and D, as showed in the attachment.(if I need to used it in another laptop with window 10, there seems to be only one disk.
3,I have not. Sorry. I know nothing about tarball file, I am searching for it now.
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I am really sorry that I just noticed there is another question.
I just try, and I attached the outcome here. I also tried tar --help and tar --usage, many others will appear after that.
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Okay. Now we have enough info to move forward. Please do the following:
- Double click msys icon to open a new shell.
- In the newly opened shell, type 'pwd'. It should show your home directory, something like: /home/xiangjun (in my case).
- Move (or copy) the downloaded tarball x3dna-v2.3-mingw-win.tar.gz into your home directory. Hopefully, you know how to get this step done.
- To verify that the x3dna-v2.3-mingw-win.tar.gz tarball is in indeed in your home directory, type "ls -l" (lower case L). Report back what you get with a screenshot.
- If the above steps all go well, run: "tar zxvfp x3dna-v2.3-mingw-win.tar.gz". Report back what you get with "ls -l" as above.
Xiang-Jun
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I am really sorry, I have not got that done. I tried three times, including try to reopen the shell after extracting the x3dna. A difference is the /home/ in my case. I showed you in the attachment.
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Well, you seemed to get up to step #2. If you are the admin, then '/home/administrator' is your home directory. Now you need to move/copy or download x3dna-v2.3-mingw-win.tar.gz into that directory. On Windows, it should be in C:\MinGW\msys\1.0\home or something like that.
No matter in Cygwin or MinGW/MSYS, you need to have the corresponding 3DNA v2.3 tarball accessible in that environment. Your "ls -l" output shows that home directory is empty. Did you also notice the "No such file ..." error message?
Let's focus on MinGW/MSYS for now. You may use Cygwin as an exercise afterwards.
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I am really grateful for your kindness and patience! Thanks a lot! I think I have installed it. I am still trying to learn about the usage. Anyhow, I already have a great time time with it. You can't image how happy I am. And I will do the homework you left for me.
Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.
