This file is indexed.

/usr/lib/R/site-library/effects/CHANGES is in r-cran-effects 2.1.0-1.

This file is owned by root:root, with mode 0o644.

The actual contents of the file can be viewed below.

  1
  2
  3
  4
  5
  6
  7
  8
  9
 10
 11
 12
 13
 14
 15
 16
 17
 18
 19
 20
 21
 22
 23
 24
 25
 26
 27
 28
 29
 30
 31
 32
 33
 34
 35
 36
 37
 38
 39
 40
 41
 42
 43
 44
 45
 46
 47
 48
 49
 50
 51
 52
 53
 54
 55
 56
 57
 58
 59
 60
 61
 62
 63
 64
 65
 66
 67
 68
 69
 70
 71
 72
 73
 74
 75
 76
 77
 78
 79
 80
 81
 82
 83
 84
 85
 86
 87
 88
 89
 90
 91
 92
 93
 94
 95
 96
 97
 98
 99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
Version 0.9-0 initial release to CRAN

Version 1.0-0

o Rewrote summary.effect method and added print.summary.effect method.

Version 1.0-1

o Blanks can be inserted into or removed from effect names without causing an error; thus, e.g., "poly(education,3)" is equivalent to "poly(education, 3)".

o Name spaces of lattice and grid packages are imported, as required in R 1.8.0.

Version 1.0-2

o Added ask argument to plot.effect.list, and row, col, nrow, ncol, and more arguments to plot.effect, to support graphing an array of effect plots.

o Fixed bug in plot.effect that caused xlab argument to be ignored in certain circumstances.

Version 1.0-3

o effect function now works if na.action is na.exclude.

Version 1.0-4

o Fixed small bug introduced in version 1.0-3.

Version 1.0-5

o x.var and z.var arguments to plot.effect now take names as well as indices.

Version 1.0-6

o A variable specified in xlevels can be fixed to a single value.

Version 1.0-7

o Made effect() generic, with a method for lm objects that handles glm objects as well.

Version 1.0-8

o Small fixes to the help files.

Version 1.0-9

o Small change to compile without a warning in R 2.4.0.

Version 1.0-10

o Standard errors of effects are computed using t rather than standard-normal distribution for models with estimated dispersion (as suggested by Brian Ripley).

o Small fixes.

o Objects are now named "eff" and "eff.list" rather than "effect" and "effect.list".

o Data sets now provided by lazy data.

Version 1.0-11

o Replaced obsolete \non_function{} markup in Rd files (reported by Kurt Hornik).

Version 1.0-12

o key.args argument added to plot.eff() (coutesy of Michael Friendly), to allow conrol over, e.g., placement of legend.

Version 2.0-0

o Jangman Hong joins project.

o support added for multinomial and proportional-odds logit models, as fit by multinom() (in nnet package) and polr() (in MASS) package, following results in Fox and Andersen (2006).

o added the argument given.values to effect() methods for finer-grain control of displays.

Version 2.0-1

o Fixed bug in effect.polr() that prevented computation for a model with a single term (reported by Paul Prew).

Version 2.0-2

o Fixed bug in print(), summary(), and plot() methods for polytomous logit models with a response with numbered levels (reported by Paul Prew).

Version 2.0-3

o Fixed bug in all effect() methods that caused error when na.action="na.exclude" (reported by Tracy Lightcap and Rob Goedman).

Version 2.0-4

o Palettes from the colorspace package are used by default for stacked plots.

o Fixed bug in handling of typical= argument to effect() (argument was effectively ignored).

o Added Titanic and Wells data sets.

o Small changes.

Version 2.0-5

o Added examples for Titanic, BEPS, and WVS data sets.

o Arguments ... (e.g., digits) passed through in print() methods.

Version 2.0-6

o Fixed small bugs in print.efflist(), summary.efflist(), and plot.effpoly() methods.

o Corrected error in missing-data handling that sometimes surfaced in effect.multinom().

o Added .Rd file for package.

Version 2.0-7

o Fixed bug in handling of given.values argument to effect().

Version 2.0-8

o The S3 method print.summary.eff is now declared in NAMESPACE (as it should have been all along).

o Added CITATION.txt file (courtesy of Achim Zeileis).

o Version corresponding to John Fox, Jangman Hong (2009), Effect Displays in R for Multinomial and Proportional-Odds Logit Models: Extensions to the effects Package. Journal of Statistical Software, 32(1), 1-24 <http://www.jstatsoft.org/v32/i01/>.

O Fixed [pgk] markup in .Rd file cross-references.

Version 2.0-9

o Applied patches contributed by Ian Fellows to allow logical predictors and various coercions in model formulas to work properly.

o Fixed name of CITATION file (was CITATION.txt).

o Small changes to docs.

Version 2.0-10

o Backed out Ian Fellows's patches because of errors.

Version 2.0-11

o Small change to eliminate warnings produced in R 2.12.0.

o Added nrows and ncols argument to plot.efflist() (following suggstion by Michael Friendly).

o Small fix to docs.

Version 2.0-12

o plot.eff() and plot.effpoly now return an object, printed by print.plot.eff() (after a question by Michael Friendly).

o New effect.gls() method, various changes for compatibility (after a question by Oriol Verdeny Vilalta).

o effect.lm() now stores the covariance matrix of the effects (after a question by Bernhard Kaess).

Version 2.0-13

o effect.multinom() and effect.polr() now use update() to refit the model rather than calling multinom() or polr() directly; update for effect.multinom() sets trace=FALSE (after suggestions by David Armstrong).

o Added [.efflist method (after a question by Andreas Roesch).

Version 2.1-0

o added support for 'mer' objects from lme4 and 'lme' objects from 'nlme'.  Added 'rotx', 'roty' and 'grid' arguments to the plot methods.