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Fixed another couple of typos in documentation
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Gareth Aneurin Tribello authored and Gareth Aneurin Tribello committed Nov 3, 2024
1 parent 82f944b commit 34dcec4
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2 changes: 1 addition & 1 deletion src/colvar/Distance.cpp
Original file line number Diff line number Diff line change
Expand Up @@ -76,7 +76,7 @@ components of the vectors connecting the four atoms:
```plumed
d: DISTANCE COMPONENTS ATOMS1=1,2 ATOMS2=3,4 ATOMS3=5,6 ATOMS4=7,8
PRINT ARG=d.x,d.y.d.z FILE=colvar
PRINT ARG=d.x,d.y,d.z FILE=colvar
```
You can also replace COMPONENTS with SCALED_COMPONENTS in the above input and obtain the projects of these vectors
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2 changes: 1 addition & 1 deletion src/pamm/PAMM.cpp
Original file line number Diff line number Diff line change
Expand Up @@ -63,7 +63,7 @@ MOLINFO MOLTYPE=protein STRUCTURE=regtest/pamm/rt-pamm-periodic/M1d.pdb
psi: TORSION ATOMS1=@psi-2 ATOMS2=@psi-3 ATOMS3=@psi-4
phi: TORSION ATOMS1=@phi-2 ATOMS2=@phi-3 ATOMS3=@phi-4
p: PAMM ARG=phi,psi CLUSTERS=regtest/pamm/rt-pamm-periodic/2D-testc-0.75.pammp MEAN
PRINT ARG=p-1_mean-1,p-2_mean FILE=colvar
PRINT ARG=p-1_mean,p-2_mean FILE=colvar
```
The best place to start our explanation is to look at the contents of the `2D-testc-0.75.pammp` file, which you can do
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Found broken examples in automatic/ANN.tmp
Found broken examples in automatic/CAVITY.tmp
Found broken examples in automatic/CLASSICAL_MDS.tmp
Found broken examples in automatic/CONSTANT.tmp
Found broken examples in automatic/CONVERT_TO_FES.tmp
Found broken examples in automatic/COORDINATIONNUMBER.tmp
Found broken examples in automatic/DISTANCE_FROM_CONTOUR.tmp
Found broken examples in automatic/DUMPCUBE.tmp
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Found broken examples in automatic/FUNCPATHGENERAL.tmp
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Found broken examples in automatic/FUNNEL_PS.tmp
Found broken examples in automatic/GPROPERTYMAP.tmp
Found broken examples in automatic/HISTOGRAM.tmp
Found broken examples in automatic/INCLUDE.tmp
Found broken examples in automatic/INCYLINDER.tmp
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Found broken examples in automatic/MAZE_SIMULATED_ANNEALING.tmp
Found broken examples in automatic/MAZE_STEERED_MD.tmp
Found broken examples in automatic/METATENSOR.tmp
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Found broken examples in automatic/Q3.tmp
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Found broken examples in automatic/QUATERNION.tmp
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Found broken examples in automatic/REWEIGHT_METAD.tmp
Found broken examples in automatic/SIZESHAPE_POSITION_LINEAR_PROJ.tmp
Found broken examples in automatic/SIZESHAPE_POSITION_MAHA_DIST.tmp
Found broken examples in automatic/TETRAHEDRALPORE.tmp
Found broken examples in automatic/WHAM_HISTOGRAM.tmp
Found broken examples in automatic/WHAM_WEIGHTS.tmp
Found broken examples in AnalysisPP.md
Found broken examples in CollectiveVariablesPP.md
Found broken examples in MiscelaneousPP.md

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