Fixed issue in new documentation for actions

src/matrixtools/CovarianceMatrix.cpp

@@ -38,7 +38,7 @@ com: CENTER ATOMS=1-100
 d: DISTANCES ATOMS=1-100 ORIGIN=com COMPONENTS
 # Now compute the covariance matrix
 ones: ONES SIZE=100
-covar: COVARIANCE ARG=d.x,d.y,d.z WEIGHTS=ones
+covar: COVARIANCE_MATRIX ARG=d.x,d.y,d.z WEIGHTS=ones
 ```  
 
 */

src/matrixtools/Determinent.cpp

@@ -56,6 +56,7 @@ void Determinant::registerKeywords( Keywords& keys ) {
   ActionShortcut::registerKeywords(keys);
   keys.addInputKeyword("compulsory","ARG","matrix","The matrix that we are calculating the determinant for");
   keys.setValueDescription("scalar","the determinant of the matrix");
+  keys.needsAction("DIAGONALIZE"); keys.needsAction("PRODUCT");
 }
 
 Determinant::Determinant( const ActionOptions& ao):

src/matrixtools/DiagonalizeMatrix.cpp

@@ -31,7 +31,7 @@ function from the [LAPACK](https://www.netlib.org/lapack/explore-html/) library
  of a real symmetric matrix. For example, the following input can be used to calculate and print all four eigenvalues of the input [DISTANCE_MATRIX](DISTANCE_MATRIX.md).
 
 ```plumed
-d: DISTANCE_MATRIX ARG=1-4 
+d: DISTANCE_MATRIX GROUP=1-4 
 diag: DIAGONALIZE ARG=d
 PRINT ARG=diag.vals-1,diag.vals-2,diag.vals-3,diag.vals-4 FILE=colvar
 ```
@@ -40,7 +40,7 @@ If you wish to calculate only a subset of the eigenvalues and eigenvectors you w
 and its corresponding eigenvector.
 
 ```plumed
-d: DISTANCE_MATRIX ARG=1-4 
+d: DISTANCE_MATRIX GROUP=1-4 
 diag: DIAGONALIZE ARG=d VECTORS=1
 PRINT ARG=diag.vals-1,diag.vecs-1 FILE=colvar
 ```

src/matrixtools/InvertMatrix.cpp

@@ -51,7 +51,7 @@ The following example shows how this action is used in practise:
 ```plumed
 c: DISTANCE_MATRIX ATOMS=1-4
 ci: INVERT_MATRIX ARG=c
-PRINT ARG=c1 FILE=colvar
+PRINT ARG=ci FILE=colvar
 ```
 
 */

src/matrixtools/MatrixTimesVector.cpp

@@ -54,7 +54,7 @@ You can also multiply a single matrix by multiple vectors:
 c1: CONTACT_MATRIX GROUP=1-7 SWITCH={RATIONAL R_0=2.6 NN=6 MM=12 D_MAX=10.0}
 ones: ONES SIZE=7
 twos: CONSTANT VALUES=1,2,3,4,5,6,7
-cc: MATRIX_VECTOR_PRODUCT=c1,ones,twos
+cc: MATRIX_VECTOR_PRODUCT ARG=c1,ones,twos
 PRINT ARG=cc.ones,cc.twos FILE=colvar
 ```
 

src/matrixtools/OuterProduct.cpp

@@ -54,7 +54,7 @@ consider the following input:
 c1: CONTACT_MATRIX GROUP=1-100 SWITCH={GAUSSIAN D_0=5.29 R_0=0.01 D_MAX=5.3}
 # Calculate the coordination numbers
 ones: ONES SIZE=100
-cc: MATRIX_VECTOR PRODUCT ARG=c1,ones
+cc: MATRIX_VECTOR_PRODUCT ARG=c1,ones
 # Now use MORE_THAN to work out which atoms have a coordination number that is bigger than six
 cf: MORE_THAN ARG=cc SWITCH={RATIONAL D_0=5.5 R_0=0.5}
 # Now make a matrix in which element i,j is one if atom i and atom j both have a coordination number that is greater than 6

src/multicolvar/Torsions.cpp

@@ -79,6 +79,7 @@ PLUMED_REGISTER_ACTION(Torsions,"TORSIONS")
 void Torsions::registerKeywords(Keywords& keys) {
   ActionShortcut::registerKeywords( keys ); MultiColvarShortcuts::shortcutKeywords( keys );
   keys.needsAction("TORSION");
+  keys.add("atoms","ATOMS","the four atoms involved in the torsional angle");
   keys.setValueDescription("vector","the TORSION for each set of three atoms that were specified");
 }