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PairwiseListMatrices.jl Release Notes

Changes from v0.10 to v0.11

Fix bug in from_table.

Changes from v0.9 to v0.10

  • Add the @iterateupper,, @iteratelist and @iteratediag macros back again thanks to @simeonschaub (Simeon Schaub) PR. The @iterate... macros are faster than the apply2... functions.

Changes from v0.8 to v0.9

  • The @iterateupper,, @iteratelist and @iteratediag macros have been replaced by the apply2upper, apply2list and apply2diag functions.

Changes from v0.6 to v0.7

PairwiseListMatrices v0.7 requires Julia 0.7/1.0. PairwiseListMatrices v0.6 was the last version with Julia 0.6 support.

  • writecsv changed to writedlm using delim=','.

  • A type parameter to indicate the wrapped matrix type was added to NamedResidueMatrix, which is now NamedResidueMatrix{Array{Residue,2}}.

Changes from v0.5 to v0.6

PairwiseListMatrices v0.6 requires Julia v0.6. PairwiseListMatrices v0.5 was the last version with Julia 0.5 support.

Changes from v0.4 to v0.5

  • It has better support for Julia 0.5, e.g. faster map and broadcast.

  • The label field of PairwiseListMatrix is eliminated, NamedArrays are used instead for storing element names.

  • PairwiseListMatrix now takes the type of the list vector as type parameter. This gives better support for different vector types e.g. BitArray.

  • RecipesBase are used for plot the matrices using Plots.

  • from_ and to_dataframe are deprecated in favor of a more general from_table and DataFrame(to_dict(...)) respectively.

  • It solves some bugs.

Changes from v0.3 to v0.4

PairwiseListMatrices v0.4 requires Julia v0.5. PairwiseListMatrices v0.3 was the last version with Julia 0.4 support.

Changes from v0.2 to v0.3

  • join two PairwiseListMatrices by their labels

  • PairwiseListMatrix nows works with any AbstractVector. i.e. DataArrays

Changes from v0.1 to v0.2

  • hasdiagonal returns the diagonal boolean value of PairwiseListMatrix{T, diagonal}

  • getlist and getdiag are defined for getting the listor diag fields of a PairwiseListMatrix.

  • lengthlist was added for returning the length of a list given a PairwiseListMatrix or a number of elements.

  • ij2k was added for getting the indexes on the list given the i and j on the upper triangular part of the matrix.

  • @iterateupper, @iteratelist and @iteratediag for easy iterations over a PairwiseListMatrix and its fields.

  • protovis was added for plotting a PairwiseListMatrix as a network using the javascript protovis library.

  • writecsv and writedlm for PairwiseListMatrix

  • from_table and to_table go back and forth between PairwiseListMatrix and a three columns Matrix.

  • from_dataframe and to_dataframe go back and forth between PairwiseListMatrix and a three columns DataFrame.

  • zscore and zscore! were added and works on Vector{PairwiseListMatrix{T, diagonal}}

  • triu is now defined for PairwiseListMatrix

  • convert goes back and forth between Matrix{T} and PairwiseListMatrix

  • ./ is now defined for PairwiseListMatrix of integers and the results are always Float64.

  • The type parameter L, which had been indicating the type of the labels, was eliminated: PairwiseListMatrix{T, L, diagonal} is now PairwiseListMatrix{T, diagonal}.

  • Package precompilation is now allowed

PairwiseListMatrices v0.2 also includes several bug fixes.