AMBER Archive (2006)

Subject: AMBER: trajin and rms

From: a a (patd_2_at_hotmail.com)
Date: Sun May 21 2006 - 23:18:37 CDT

Dear Sir/Madam,

Thank you very much for your help!

I try to do the tutorial section 3.3.2) Calculating the RMSd vs. time.

However, when I tryped the commands, the following error messages appeared,
I can find the ptraji file in the exe directory, but not trajin and rms.

[PATH]$ trajin polyAT_vac_md1_12Acut.mdcrd
bash: trajin: command not found

[PATH$ rms first mass out polyAT_vac_md1_12Acut.rms time 0.1
bash: rms: command not found

[PATH]$ ptraj polyAT_vac.prmtop < polyAT_vac_md1_12Acut.calc_rms
bash: polyAT_vac_md1_12Acut.calc_rms: No such file or directory

Could you mind to teach me what should I do to solve this problem?

Best regards,

Annie

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