Question about vampire installation in mac
张鲸鱼
Richard Evans
Whalez
Gavin Abo
I'm not a mac user, but if it is similar to Linux and you have modified .bash_profile accordingly, then you should not have to use "/opt/vampire/bin/vampire-serial" and it should be sufficient to use instead just "vampire-serial".
If it not working, the .bash_profile might not have been reloaded. Restarting the computer, login/logout, or close/open a new terminal might be needed to reload the .bash_profile after you had saved the "export PATH=/opt/vampire/bin/:$PATH" in it.
In your screenshot
(WeChate8561cc790e728d6905737f8f7b59619.png), it looks like you
may be running vampire-serial in your home directory (i.e., ~ %)
which is probably not good to do. Thus, the error is probably
because your missing an input file for vampire there or you need
to navigate to the directory where you made or placed a vampire
input file. I think one usually creates a calculation directory
and puts the input file (and .mat) file in it [1,2], then runs
vampire-serial while in that directory. For example, if your
calculation directory was called 1aNi [1], I think your terminal
would probably show for example "~\1aNi %" not "~ %" when you
are 1aNi folder in the terminal.
[2] https://groups.google.com/g/vampire-users/c/LS51ZlvZeyw/m/F7gfJCBLAgAJ
Kind Regards,
Gavin
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Whalez
I'm sorry to reply to you so late. I tried your method and restarted the computer, but still reported the same error. I downloaded the sample file in the GitHub you provided and ran CP / opt / Vampire / bin / *, vampire serial in the working folder. However, the following error was returned. Can you tell me how to solve it?Gavin Abo
In your screenshot, it looks like you are using a ZSH shell.
Refer for example to:
https://apple.stackexchange.com/questions/356441/how-to-add-permanent-environment-variable-in-zsh
Did you "echo $PATH" and check if "/opt/vampire/bin/" is there in the output?
After editing .zshrc to add and save
the line:
export PATH=/opt/vampire/bin/:$PATH
Did you "source ~/.zshrc" like that
shown at:
Also, the input and case.mat for example need to be in the directory you are in. You not enter "ls -a" [1] to to show what is the directory in your screenshot to show that only those such files are there.
By the way, files/folders under /opt are likely reserved for operating system or root. So it probably best not to put input and Co.mat files in "/opt/vampire/bin" like what you showed in one of your previous screenshots. You will probably want to create as a user a folder in your home directory [2] and use that instead. For example,
cd ~
mkdir Co
cd Co
Put in Co the input and Co.mat, then
if vampire-serial is set in the environment (e.g., .zshrc) run:
vampire-serial
Or vampire-serial is not in the
environment run using the full path:
/opt/vampire/bin/
[1] https://superuser.com/questions/475774/ls-al-mac-terminal
[2]
https://superuser.com/questions/768880/tilde-in-mac-osx-terminal-pathway
Kind Regards,
Gavin
To view this discussion on the web visit https://groups.google.com/d/msgid/vampire-users/188cda0f-b29b-4b0a-b4e2-dc37b984ff32n%40googlegroups.com.
Whalez
Gavin Abo
When vampire has successfully ran it seems that the "Simulation ended gracefully" message is shown like in your screenshot, the output file is generated, and other files such as a log file are generated. So yes, it looks like vampire successfully ran in your case.
If you happen to be going through the Ni example and are
interested in getting the plot of the Ni temperature vs normalized
magnetization without the fit curve seen on slide 69 of the file
at:
I was able to use the files at
https://github.com/richard-evans/vampire-workshop/tree/master/input-files/1_intro/1a_Ni
to get a plot of it by doing the following in a terminal:
username@computername:~/vampire-workshop/input-files/1_intro/1a_Ni$
ls -l
total 16
-rw-rw-r-- 1 username username 1584 Jul 25 11:42 input
-rw-rw-r-- 1 username username 1687 Jul 25 11:42 input_pulse
-rw-rw-r-- 1 username username 792 Jul 25 11:42 Ni.mat
-rwxrwxr-x 1 username username 848 Jul 25 11:42 README.md
username@computername:~/vampire-workshop/input-files/1_intro/1a_Ni$
vampire-serial
_
(_)
__ ____ _ _ __ ___ _ __ _ _ __ ___
\ \ / / _` | '_ ` _ \| '_ \| | '__/ _ \
\ V / (_| | | | | | | |_) | | | | __/
\_/ \__,_|_| |_| |_| .__/|_|_| \___|
| |
|_|
Version 5.0.1 Jul 19 2021 05:54:31
Git commit: c0cb858d7dcdcdfc6474938324e363599e728b30
Licensed under the GNU Public License(v2). See licence file for
details.
Lead Developer: Richard F L Evans
<richar...@york.ac.uk>
Contributors: Andrea Meo, Rory Pond, Weijia Fan,
Phanwadee Chureemart, Sarah Jenkins, Joe Barker,
Thomas Ostler, Andreas Biternas, Roy W Chantrell,
Wu Hong-Ye, Matthew Ellis, Razvan Ababei,
Sam Westmoreland, Oscar Arbelaez, Sam Morris
Compiled with: GNU C++ Compiler
Compiler Flags:
Vampire includes a copy of the qhull library from C.B. Barber
and The
Geometry Center and may be obtained via http from www.qhull.org.
================================================================================
Sun Jul 25 11:43:53 2021
================================================================================
Initialising system variables
Creating system
Generating neighbour list..........done!
Copying system data to optimised data structures.
Using generic/normalised form of exchange interaction with 48
total interactions.
Number of atoms generated: 6912
Starting Simulation with Program Curie-Temperature...
0 1
25 0.986425
50 0.972544
75 0.958207
100 0.943776
125 0.92874
150 0.913277
175 0.898092
200 0.88159
225 0.864251
250 0.846723
275 0.829562
300 0.810906
325 0.790275
350 0.769637
375 0.747757
400 0.722924
425 0.696795
450 0.671575
475 0.639302
500 0.603384
525 0.567703
550 0.523141
575 0.464897
600 0.397403
625 0.279062
650 0.131911
675 0.0691506
700 0.0541263
725 0.0421983
750 0.0385151
775 0.0341557
800 0.0302172
Simulation run time [s]: 3075.76
Monte Carlo statistics:
Total moves: 4561920000
36.69% Accepted
63.31% Rejected
Simulation ended gracefully.
username@computername:~/vampire-workshop/input-files/1_intro/1a_Ni$ ls
-l
total 24
-rw-rw-r-- 1 username username 1584 Jul 25 11:42 input
-rw-rw-r-- 1 username username 1687 Jul 25 11:42 input_pulse
-rw-rw-r-- 1 username username 2928 Jul 25 12:35 log
-rw-rw-r-- 1 username username 792 Jul 25 11:42 Ni.mat
-rw-rw-r-- 1 username username 2458 Jul 25 12:35 output
-rwxrwxr-x 1 username username 848 Jul 25 11:42 README.md
username@computername:~/vampire-workshop/input-files/1_intro/1a_Ni$
gnuplot
G N U P L O T
Version 5.2 patchlevel 8 last modified 2019-12-01
Copyright (C) 1986-1993, 1998, 2004, 2007-2019
Thomas Williams, Colin Kelley and many others
gnuplot home: http://www.gnuplot.info
faq, bugs, etc: type "help FAQ"
immediate help: type "help" (plot window: hit 'h')
Terminal type is now 'wxt'
gnuplot> set xlabel "Temperature (K)"
gnuplot> set ylabel "Normalized magnetization"
gnuplot> p "output" u 2:7 w p
gnuplot> quit
Note: At about 24:50 of the video at
https://www.youtube.com/watch?v=W5ivNgUklr8
it described for the output file that column 2 is temperature.
It might be because of an input difference or a vampire version
difference (5.0.1 April 2020 in video from that of 5.0.1 July 2021
used) that column 7 instead of 8 gave the average magnetization
values over the entire simulation.
Kind Regards,
Gavin