Added missing TestMethod annotations for the matching methods

cdk · Jan 24, 2012 · 8392519 · 8392519
1 parent c11a1e3
commit 8392519
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diff --git a/src/main/org/openscience/cdk/io/formats/ABINITFormat.java b/src/main/org/openscience/cdk/io/formats/ABINITFormat.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("natom") >= 0 ||
             line.indexOf("ABINIT") >= 0) {

diff --git a/src/main/org/openscience/cdk/io/formats/ADFFormat.java b/src/main/org/openscience/cdk/io/formats/ADFFormat.java
@@ -69,6 +69,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Amsterdam Density Functional") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Aces2Format.java b/src/main/org/openscience/cdk/io/formats/Aces2Format.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("ACES2") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/CACheFormat.java b/src/main/org/openscience/cdk/io/formats/CACheFormat.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("molstruct")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/CDKOWLFormat.java b/src/main/org/openscience/cdk/io/formats/CDKOWLFormat.java
@@ -70,6 +70,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.rdf.CDKOWLWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("PREFIX") &&
             line.contains("http://cdk.sourceforge.net/model.owl#")) {

diff --git a/src/main/org/openscience/cdk/io/formats/CIFFormat.java b/src/main/org/openscience/cdk/io/formats/CIFFormat.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("_cell_length_a") ||
             line.startsWith("_audit_creation_date") ||

diff --git a/src/main/org/openscience/cdk/io/formats/CMLFormat.java b/src/main/org/openscience/cdk/io/formats/CMLFormat.java
@@ -74,6 +74,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.CMLWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if ((line.indexOf("http://www.xml-cml.org/schema") != -1) ||
             (line.indexOf("<atom") != -1) ||

diff --git a/src/main/org/openscience/cdk/io/formats/CTXFormat.java b/src/main/org/openscience/cdk/io/formats/CTXFormat.java
@@ -72,6 +72,7 @@ public String getWriterClassName() {
       return null;
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 1 && line.startsWith(" /IDENT")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/CrystClustFormat.java b/src/main/org/openscience/cdk/io/formats/CrystClustFormat.java
@@ -72,6 +72,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.CrystClustWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 1 && line.startsWith("frame: ")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/DaltonFormat.java b/src/main/org/openscience/cdk/io/formats/DaltonFormat.java
@@ -70,6 +70,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("DALTON") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/GamessFormat.java b/src/main/org/openscience/cdk/io/formats/GamessFormat.java
@@ -72,6 +72,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("GAMESS execution script") >= 0 ||
             line.indexOf("GAMESS VERSION") >= 0) {

diff --git a/src/main/org/openscience/cdk/io/formats/Gaussian03Format.java b/src/main/org/openscience/cdk/io/formats/Gaussian03Format.java
@@ -72,6 +72,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Gaussian(R) 03") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Gaussian90Format.java b/src/main/org/openscience/cdk/io/formats/Gaussian90Format.java
@@ -69,6 +69,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Gaussian G90") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Gaussian92Format.java b/src/main/org/openscience/cdk/io/formats/Gaussian92Format.java
@@ -69,6 +69,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Gaussian 92") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Gaussian94Format.java b/src/main/org/openscience/cdk/io/formats/Gaussian94Format.java
@@ -69,6 +69,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Gaussian 94") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Gaussian95Format.java b/src/main/org/openscience/cdk/io/formats/Gaussian95Format.java
@@ -69,6 +69,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Gaussian 95") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Gaussian98Format.java b/src/main/org/openscience/cdk/io/formats/Gaussian98Format.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 		if (line.indexOf("Gaussian(R) 98") >= 0 ||
             line.indexOf("Gaussian 98") >= 0) {

diff --git a/src/main/org/openscience/cdk/io/formats/GhemicalMMFormat.java b/src/main/org/openscience/cdk/io/formats/GhemicalMMFormat.java
@@ -72,6 +72,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("!Header gpr")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/GhemicalSPMFormat.java b/src/main/org/openscience/cdk/io/formats/GhemicalSPMFormat.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("!Header mm1gp")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/HINFormat.java b/src/main/org/openscience/cdk/io/formats/HINFormat.java
@@ -76,6 +76,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.HINWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("atom ") &&
             (line.endsWith(" s") || line.endsWith(" d") ||

diff --git a/src/main/org/openscience/cdk/io/formats/INChIFormat.java b/src/main/org/openscience/cdk/io/formats/INChIFormat.java
@@ -72,6 +72,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("<INChI") != -1) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/INChIPlainTextFormat.java b/src/main/org/openscience/cdk/io/formats/INChIPlainTextFormat.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("INChI=")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/JaguarFormat.java b/src/main/org/openscience/cdk/io/formats/JaguarFormat.java
@@ -71,6 +71,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Jaguar") >= 0 &&
             line.indexOf("Schrodinger") >= 0) {

diff --git a/src/main/org/openscience/cdk/io/formats/MDLFormat.java b/src/main/org/openscience/cdk/io/formats/MDLFormat.java
@@ -74,6 +74,7 @@ public String getWriterClassName() {
       return null;
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 4 && line.length()>7 && 
         		   (line.indexOf("2000") == -1) && // MDL Mol V2000 format 

diff --git a/src/main/org/openscience/cdk/io/formats/MDLRXNFormat.java b/src/main/org/openscience/cdk/io/formats/MDLRXNFormat.java
@@ -72,6 +72,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("$RXN")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/MDLRXNV3000Format.java b/src/main/org/openscience/cdk/io/formats/MDLRXNV3000Format.java
@@ -75,6 +75,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
     	if (lineNumber == 1) {
     		isRXN = (line.indexOf("$RXN") != -1);

diff --git a/src/main/org/openscience/cdk/io/formats/MDLV2000Format.java b/src/main/org/openscience/cdk/io/formats/MDLV2000Format.java
@@ -72,6 +72,7 @@ public String getWriterClassName() {
     	return "org.openscience.cdk.io.MDLV2000Writer";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 4 && 
             (line.indexOf("v2000") >= 0 ||

diff --git a/src/main/org/openscience/cdk/io/formats/MDLV3000Format.java b/src/main/org/openscience/cdk/io/formats/MDLV3000Format.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 4 && 
             (line.indexOf("v3000") >= 0 ||

diff --git a/src/main/org/openscience/cdk/io/formats/MOPAC2002Format.java b/src/main/org/openscience/cdk/io/formats/MOPAC2002Format.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("MOPAC2002") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/MOPAC7Format.java b/src/main/org/openscience/cdk/io/formats/MOPAC7Format.java
@@ -69,6 +69,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("MOPAC:  VERSION  7.00") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/MOPAC93Format.java b/src/main/org/openscience/cdk/io/formats/MOPAC93Format.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("MOPAC  93") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/MOPAC97Format.java b/src/main/org/openscience/cdk/io/formats/MOPAC97Format.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("MOPAC  97.") >= 0){
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/MoSSOutputFormat.java b/src/main/org/openscience/cdk/io/formats/MoSSOutputFormat.java
@@ -78,6 +78,7 @@ public String getReaderClassName() {
     public String getWriterClassName() { return null; }
 
     /** {@inheritDoc} */
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 1 && line.equals("id,description,nodes,edges,s_abs,s_rel,c_abs,c_rel")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/Mol2Format.java b/src/main/org/openscience/cdk/io/formats/Mol2Format.java
@@ -74,6 +74,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.Mol2Writer"; 
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("<TRIPOS>") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/NWChemFormat.java b/src/main/org/openscience/cdk/io/formats/NWChemFormat.java
@@ -71,6 +71,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Northwest Computational Chemistry Package") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/PDBFormat.java b/src/main/org/openscience/cdk/io/formats/PDBFormat.java
@@ -74,6 +74,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.PDBWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("HEADER") ||
             line.startsWith("HETATM ") ||

diff --git a/src/main/org/openscience/cdk/io/formats/PMPFormat.java b/src/main/org/openscience/cdk/io/formats/PMPFormat.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("%%Header Start")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/PubChemASNFormat.java b/src/main/org/openscience/cdk/io/formats/PubChemASNFormat.java
@@ -84,6 +84,7 @@ public int getRequiredDataFeatures() {
 		return DataFeatures.NONE;
 	}
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 		if (lineNumber == 1 && line.startsWith("PC-Compound")) return true;
 		return false;

diff --git a/src/main/org/openscience/cdk/io/formats/PubChemCompoundXMLFormat.java b/src/main/org/openscience/cdk/io/formats/PubChemCompoundXMLFormat.java
@@ -84,6 +84,7 @@ public int getRequiredDataFeatures() {
 		return DataFeatures.NONE;
 	}
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 	    if (lineNumber <= 2 && line.contains("<PC-Compound") &&
 	        !line.contains("<PC-Compounds")) return true;

diff --git a/src/main/org/openscience/cdk/io/formats/PubChemCompoundsXMLFormat.java b/src/main/org/openscience/cdk/io/formats/PubChemCompoundsXMLFormat.java
@@ -84,6 +84,7 @@ public int getRequiredDataFeatures() {
 		return DataFeatures.NONE;
 	}
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 		if (line.contains("<PC-Compounds")) return true;
 		return false;

diff --git a/src/main/org/openscience/cdk/io/formats/PubChemSubstanceXMLFormat.java b/src/main/org/openscience/cdk/io/formats/PubChemSubstanceXMLFormat.java
@@ -84,6 +84,7 @@ public int getRequiredDataFeatures() {
 		return DataFeatures.NONE;
 	}
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 		if (lineNumber <= 2 && line.contains("<PC-Substance") &&
 		    !line.contains("<PC-Substances")) return true;

diff --git a/src/main/org/openscience/cdk/io/formats/PubChemSubstancesASNFormat.java b/src/main/org/openscience/cdk/io/formats/PubChemSubstancesASNFormat.java
@@ -84,6 +84,7 @@ public int getRequiredDataFeatures() {
 		return DataFeatures.NONE;
 	}
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 		if (lineNumber == 1 && line.startsWith("PC-Substances")) return true;
 		return false;

diff --git a/src/main/org/openscience/cdk/io/formats/PubChemSubstancesXMLFormat.java b/src/main/org/openscience/cdk/io/formats/PubChemSubstancesXMLFormat.java
@@ -84,6 +84,7 @@ public int getRequiredDataFeatures() {
 		return DataFeatures.NONE;
 	}
 
+    @TestMethod("testMatches")
 	public boolean matches(int lineNumber, String line) {
 		if (line.contains("<PC-Substances")) return true;
 		return false;

diff --git a/src/main/org/openscience/cdk/io/formats/QChemFormat.java b/src/main/org/openscience/cdk/io/formats/QChemFormat.java
@@ -70,6 +70,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Welcome to Q-Chem") != -1) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/RGroupQueryFormat.java b/src/main/org/openscience/cdk/io/formats/RGroupQueryFormat.java
@@ -80,6 +80,7 @@ public String getWriterClassName() {
         return "org.openscience.cdk.io.RGroupQueryWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("$RGP") >= 0)
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/SDFFormat.java b/src/main/org/openscience/cdk/io/formats/SDFFormat.java
@@ -74,6 +74,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.SDFWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.equals("$$$$")) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/ShelXFormat.java b/src/main/org/openscience/cdk/io/formats/ShelXFormat.java
@@ -74,6 +74,7 @@ public String getWriterClassName() {
       return "org.openscience.cdk.io.ShelXWriter";
     }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.startsWith("ZERR ") ||
             line.startsWith("TITL ")) {

diff --git a/src/main/org/openscience/cdk/io/formats/SpartanFormat.java b/src/main/org/openscience/cdk/io/formats/SpartanFormat.java
@@ -68,6 +68,7 @@ public String[] getNameExtensions() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("Spartan") != -1 &&
             line.indexOf("Quantum Mechanics Program") != -1) {

diff --git a/src/main/org/openscience/cdk/io/formats/VASPFormat.java b/src/main/org/openscience/cdk/io/formats/VASPFormat.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (line.indexOf("NCLASS=") >= 0) {
             return true;

diff --git a/src/main/org/openscience/cdk/io/formats/ZMatrixFormat.java b/src/main/org/openscience/cdk/io/formats/ZMatrixFormat.java
@@ -70,6 +70,7 @@ public String getReaderClassName() {
     @TestMethod("testGetWriterClassName")
     public String getWriterClassName() { return null; }
 
+    @TestMethod("testMatches")
     public boolean matches(int lineNumber, String line) {
         if (lineNumber == 4 && line.indexOf("Z Matrix") != -1) {
             return true;