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JAL-2189 release notes
[jalview.git]
/
src
/
MCview
/
PDBfile.java
diff --git
a/src/MCview/PDBfile.java
b/src/MCview/PDBfile.java
index
2746807
..
f5a0255
100755
(executable)
--- a/
src/MCview/PDBfile.java
+++ b/
src/MCview/PDBfile.java
@@
-55,8
+55,7
@@
public class PDBfile extends StructureFile
}
public PDBfile(boolean addAlignmentAnnotations, boolean predictSecStr,
}
public PDBfile(boolean addAlignmentAnnotations, boolean predictSecStr,
- boolean externalSecStr,
- FileParse source) throws IOException
+ boolean externalSecStr, FileParse source) throws IOException
{
super(false, source);
addSettings(addAlignmentAnnotations, predictSecStr, externalSecStr);
{
super(false, source);
addSettings(addAlignmentAnnotations, predictSecStr, externalSecStr);
@@
-145,7
+144,7
@@
public class PDBfile extends StructureFile
Atom tmpatom = new Atom(line);
try
{
Atom tmpatom = new Atom(line);
try
{
- tmpchain = findChain(tmpatom.chain);
+ tmpchain = findChain(tmpatom.chain);
if (tmpatom.resNumIns.trim().equals(lastID))
{
// phosphorylated protein - seen both CA and P..
if (tmpatom.resNumIns.trim().equals(lastID))
{
// phosphorylated protein - seen both CA and P..
@@
-203,8
+202,6
@@
public class PDBfile extends StructureFile
markCalcIds();
}
markCalcIds();
}
-
-
/**
* Process a parsed chain to construct and return a Sequence, and add it to
* the list of sequences parsed.
/**
* Process a parsed chain to construct and return a Sequence, and add it to
* the list of sequences parsed.