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(parent: abc9125) | patch
Add equation numbers in reference manual
authorPaul Bauer <paul.bauer.q@gmail.com>
Sat, 27 Oct 2018 14:25:32 +0000 (16:25 +0200)
committerErik Lindahl <erik.lindahl@gmail.com>
Wed, 31 Oct 2018 05:28:01 +0000 (06:28 +0100)
commit509015640c6cda2ce6d0a9112838c6d85bbd7257
treeaf4fc031427e08e636b185090dce877778a38db4tree | snapshot
parentabc9125720ad3ece3d68daf260a5bee15fed0717commit | diff
Add equation numbers in reference manual

Went through the reference manual and added equation numbers to all
equations, as Sphinx only numbers those with a label.

Also performed some formatting fixes.

Change-Id: If37b3a0a9b9def9b7428bdbd01c13b0b685933a1
42 files changed:
docs/reference-manual/algorithms/brownian-dynamics.rst diff | blob | history
docs/reference-manual/algorithms/constraint-algorithms.rst diff | blob | history
docs/reference-manual/algorithms/energy-minimization.rst diff | blob | history
docs/reference-manual/algorithms/expanded-ensemble.rst diff | blob | history
docs/reference-manual/algorithms/free-energy-calculations.rst diff | blob | history
docs/reference-manual/algorithms/molecular-dynamics.rst diff | blob | history
docs/reference-manual/algorithms/normal-mode-analysis.rst diff | blob | history
docs/reference-manual/algorithms/parallelization-domain-decomp.rst diff | blob | history
docs/reference-manual/algorithms/replica-exchange.rst diff | blob | history
docs/reference-manual/algorithms/shell-molecular-dynamics.rst diff | blob | history
docs/reference-manual/analysis/bond-angle-dihedral.rst diff | blob | history
docs/reference-manual/analysis/correlation-function.rst diff | blob | history
docs/reference-manual/analysis/covariance-analysis.rst diff | blob | history
docs/reference-manual/analysis/curve-fitting.rst diff | blob | history
docs/reference-manual/analysis/dihedral-pca.rst diff | blob | history
docs/reference-manual/analysis/general-properties.rst diff | blob | history
docs/reference-manual/analysis/mean-square-displacement.rst diff | blob | history
docs/reference-manual/analysis/plots/sgangle.pdf diff | blob | history
docs/reference-manual/analysis/plots/sgangle.svg diff | blob | history
docs/reference-manual/analysis/radial-distribution-function.rst diff | blob | history
docs/reference-manual/analysis/using-groups.rst diff | blob | history
docs/reference-manual/averages.rst diff | blob | history
docs/reference-manual/definitions.rst diff | blob | history
docs/reference-manual/details.rst diff | blob | history
docs/reference-manual/functions/bonded-interactions.rst diff | blob | history
docs/reference-manual/functions/free-energy-interactions.rst diff | blob | history
docs/reference-manual/functions/interaction-methods.rst diff | blob | history
docs/reference-manual/functions/long-range-electrostatics.rst diff | blob | history
docs/reference-manual/functions/long-range-vdw.rst diff | blob | history
docs/reference-manual/functions/nonbonded-interactions.rst diff | blob | history
docs/reference-manual/functions/polarization.rst diff | blob | history
docs/reference-manual/functions/restraints.rst diff | blob | history
docs/reference-manual/introduction.rst diff | blob | history
docs/reference-manual/special/awh.rst diff | blob | history
docs/reference-manual/special/comp-electrophys.rst diff | blob | history
docs/reference-manual/special/enforced-rotation.rst diff | blob | history
docs/reference-manual/special/free-energy-implementation.rst diff | blob | history
docs/reference-manual/special/pulling.rst diff | blob | history
docs/reference-manual/special/qmmm.rst diff | blob | history
docs/reference-manual/special/tabulated-interaction-functions.rst diff | blob | history
docs/reference-manual/special/viscosity-calculation.rst diff | blob | history
docs/reference-manual/topologies/parameter-files.rst diff | blob | history
Local GROMACS mirror with custom stuff