lme4_test_error_report.txt

Errors and warnings from glmer : ........
fitting lmer models : ..................................................................................
lmerResp objects : ..........
glmResp objects : ................
summary : .
anova : ..............
bootMer confint() : ........
confint_other : .........
refit : ...
predict : .......2
simulate : ....................3
misc : ....
plot : .....
misc : .
.testing fixed-effect design matrices for full rank : .................
residuals : ........................
specifying starting values : ................
.summarizing/printing models : 
Utilities (including *non*-exported ones : .......................

1. Failure (at test-glmernb.R#16): basic ---------------------------------------------------------------------------------
fixef(m.nb) not equal to coef(m.glm)
6/6 mismatches (average diff: 1.03).
First 6:
 pos      x         y   diff
   1  1.650 -2.37e-06  1.650
   2  0.767  4.36e-06  0.767
   3  1.011  2.70e-06  1.011
   4  1.512  1.95e-06  1.512
   5 -0.615 -5.39e-06 -0.615
   6 -0.610 -3.80e-06 -0.610

2. Error: predict --------------------------------------------------------------------------------------------------------
object 'fmPixS' not found
1: withCallingHandlers(eval(code, new_test_environment), error = capture_calls, message = function(c) invokeRestart("muffleMessage"), 
       warning = function(c) invokeRestart("muffleWarning"))
2: eval(code, new_test_environment)
3: eval(expr, envir, enclos)
4: expect_equal(predict(fmPixS, newdata = Pixel[ii, ]), fitted(fmPixS)[ii]) at test-methods.R:252
5: expect_that(object, equals(expected, label = expected.label, ...), info = info, label = label)
6: condition(object)
7: compare(expected, actual, ...)
8: fitted(fmPixS)
9: .handleSimpleError(function (e) 
   {
       e$calls <- head(sys.calls()[-seq_len(frame + 7)], -2)
       signalCondition(e)
   }, "object 'fmPixS' not found", quote(fitted(fmPixS)))

3. Error: simulate -------------------------------------------------------------------------------------------------------
object 'fmPixS' not found
1: withCallingHandlers(eval(code, new_test_environment), error = capture_calls, message = function(c) invokeRestart("muffleMessage"), 
       warning = function(c) invokeRestart("muffleWarning"))
2: eval(code, new_test_environment)
3: eval(expr, envir, enclos)
4: expect_identical(dim(simulate(fmPixS)), c(nPix, 1L)) at test-methods.R:343
5: expect_that(object, is_identical_to(expected, label = expected.label), info = info, label = label)
6: condition(object)
7: identical(actual, expected)
8: simulate(fmPixS)
9: .handleSimpleError(function (e) 
   {
       e$calls <- head(sys.calls()[-seq_len(frame + 7)], -2)
       signalCondition(e)
   }, "object 'fmPixS' not found", quote(simulate(fmPixS)))

thanks. the first one of these is basically synonymous with the problem we're trying to sort out here. The second is caused by MEMSS not being available, and should be fixed with a commit I just pushed (putting the brackets of if (require("MEMSS")) { ... } in a slightly different place)