[MacPorts] #62868: ARB fails to run with MacPorts Installation
MacPorts
noreply at macports.org
Tue May 11 16:18:20 UTC 2021
#62868: ARB fails to run with MacPorts Installation
-------------------------+--------------------
Reporter: Channy-736 | Owner: (none)
Type: defect | Status: new
Priority: Normal | Milestone:
Component: ports | Version: 2.6.4
Resolution: | Keywords: ARB
Port: |
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Comment (by kencu):
None of this worked for you?
{{{
****************************************************************
Before running ARB you must set ARBHOME and add ARB to your PATH
****************************************************************
You have two options (A is easier, B is more difficult):
A) Easy - open a new terminal window and type arb_macsetup to set the
necessary environment variables automatically. This script also enables
keyboard shortcuts used in the sequence editor.
or
B) More difficult - follow the steps below:
1)
bash users add the following lines to your ~/.profile or to your ~/.bashrc
ARBHOME=${prefix}/share/arb;export ARBHOME
PATH=${prefix}/share/arb/bin:\$PATH
export PATH
enter the following command:
. ~/.profile
2)
tcsh users add the following lines to your ~/.cshrc
setenv ARBHOME ${prefix}/share/arb
setenv PATH ${prefix}/share/arb\:\$PATH
enter the following command:
source ~/.cshrc
C) to set up ARB for another user on this computer log into their account
and type ${prefix}/bin/arb_macsetup
************************************************************************************************************************************
You can set up keyboard shortcuts manually by creating a text file in your
home folder called .xmodmap that contains the text below:
************************************************************************************************************************************
clear Mod1
clear Mod2
keycode 63 = Mode_switch
keycode 66 = Meta_L
keycode 69 = Meta_R
add Mod1 = Meta_L Meta_R
add Mod2 = Mode_switch
*******************************************************************
Use keys Control+Command Arrow Key to jump over bases
Use Keys Option Arrow Key to pull in bases across alignment gaps
Use the right Command Key plus a letter key to activate a menu item
*******************************************************************
*****************************
Type 'arb' to start using ARB
*****************************
A demo data base is located at ${prefix}/share/arb/demo.arb
User generated macros, arb_tcp.dat and pt_servers have been preserved,
but you should keep backups of these just in case. They are located at:
${prefix}/share/arb/lib/macros/
${prefix}/share/arb/lib/arb_tcp.dat
${prefix}/share/arb/lib/pts/
Default settings are maintained at:
${prefix}/share/arb/lib/macros.default/
${prefix}/share/arb/lib/arb_tcp.dat.default
These notes can be viewed at any time by typing 'port notes arb'
Please cite: Wolfgang Ludwig, et al. (2004) ARB: a software environment
for sequence data. Nucleic Acids Research. 32:1363-1371
}}}
--
Ticket URL: <https://trac.macports.org/ticket/62868#comment:2>
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