X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Ffeatures%2Fcommandline.html;h=ac462e0b8a24cf81db8442b47df97bcf3ee7924e;hb=0d81a5a9a33a6bf59c02cc6e6727533584c8fc98;hp=27a1a682935133281e9b14539f66b5160869d692;hpb=ee7fcf8d9d817e079c2f0498d149ec45a21f82dc;p=jalview.git diff --git a/help/help/html/features/commandline.html b/help/help/html/features/commandline.html index 27a1a68..ac462e0 100644 --- a/help/help/html/features/commandline.html +++ b/help/help/html/features/commandline.html @@ -38,7 +38,7 @@
- /PATH_TO_JALVIEW/Jalview -open http://www.jalview.org/examples/jpred_msa.fasta -annotations http://www.jalview.org/examples/jpred_msa.seq.concise -colour Clustal+ /PATH_TO_JALVIEW/Jalview -open https://www.jalview.org/examples/jpred_msa.fasta -annotations https://www.jalview.org/examples/jpred_msa.seq.concise -colour Clustal
\PATH_TO_JALVIEW\Jalview.exe -open %HOMEPATH%\myalignment.fa@@ -49,7 +49,7 @@ open /Applications/Jalview.app --args -open ~/myalignment.fa(put
- <Path to Java home>/bin/java -jar %lt;Path to Jalview Jar>/jalview-all-1.8.jar -open myalignment.fa
If you have installed Jalview via conda or another package @@ -65,10 +65,34 @@ open /Applications/Jalview.app --args -open ~/myalignment.fa(put
Passing JVM Arguments to Jalview
If you need
- to modify parameters for Jalview's Java Virtual Machine, then take a
- look at the instructions for how to setting
- the JVM's maximum memory.
+ to modify parameters for Jalview's Java Virtual Machine, or
+ configure system properties, then take a look at the instructions
+ for how to setting the JVM's
+ maximum memory.
+
+ Changing Jalview's 'Look and Feel'
If you
+ are experiencing issues with the font size or layout of Jalview's
+ GUI, you can try changing Jalview's 'Look and feel' by
+ specifying a custom system property 'laf' on startup (see setting the JVM's memory for
+ instructions on how to do this for your platform).
For the
+ Jalview standalone executable jar, simply provide one of the
+ property settings before the -jar argument