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-rw-r--r--DESCRIPTION2
-rw-r--r--data/pyrithione.rdabin54479 -> 12931 bytes
-rw-r--r--tests/IM1xIPC81.Rout.save16
-rw-r--r--tests/XY.Rout.save4
-rw-r--r--tests/antifoul.Rout.save6
-rw-r--r--tests/pyrithione.Rout.save78
6 files changed, 48 insertions, 58 deletions
diff --git a/DESCRIPTION b/DESCRIPTION
index 997f7c1..a31c084 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,5 +1,5 @@
Package: drfit
-Version: 0.05-87
+Version: 0.05-88
Date: 2007-03-29
Title: Dose-response data evaluation
Author: Johannes Ranke <jranke@uni-bremen.de>
diff --git a/data/pyrithione.rda b/data/pyrithione.rda
index 0256679..2ce3baf 100644
--- a/data/pyrithione.rda
+++ b/data/pyrithione.rda
Binary files differ
diff --git a/tests/IM1xIPC81.Rout.save b/tests/IM1xIPC81.Rout.save
index 41d4e48..c927d25 100644
--- a/tests/IM1xIPC81.Rout.save
+++ b/tests/IM1xIPC81.Rout.save
@@ -1,6 +1,6 @@
-R : Copyright 2006, The R Foundation for Statistical Computing
-Version 2.3.1 beta (2006-05-18 r38119)
+R version 2.4.1 (2006-12-18)
+Copyright (C) 2006 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
@@ -25,8 +25,8 @@ IM13 BF4: Fitting data...
IM14 BF4: Fitting data...
Error in nls(response ~ linlogitf(dose, 1, f, logED50, b), data = tmp, :
- singular gradient
-Error in numericDeriv(form[[3]], names(ind), env) :
+ Convergence failure: false convergence (8)
+Error in numericDeriv(form[[3]], names(ind), env, ifelse(internalPars < :
Missing value or an infinity produced when evaluating the model
In addition: Warning message:
NaNs produced in: pnorm(q, mean, sd, lower.tail, log.p)
@@ -37,21 +37,21 @@ IM16 BF4: Fitting data...
IM17 BF4: Fitting data...
Waiting for profiling to be done...
-Error in numericDeriv(form[[3]], names(ind), env) :
+Error in numericDeriv(form[[3]], names(ind), env, ifelse(internalPars < :
Missing value or an infinity produced when evaluating the model
In addition: Warning message:
NaNs produced in: pnorm(q, mean, sd, lower.tail, log.p)
IM18 BF4: Fitting data...
Waiting for profiling to be done...
-Error in numericDeriv(form[[3]], names(ind), env) :
+Error in numericDeriv(form[[3]], names(ind), env, ifelse(internalPars < :
Missing value or an infinity produced when evaluating the model
In addition: Warning message:
NaNs produced in: pnorm(q, mean, sd, lower.tail, log.p)
IM19 BF4: Fitting data...
Waiting for profiling to be done...
-Error in numericDeriv(form[[3]], names(ind), env) :
+Error in numericDeriv(form[[3]], names(ind), env, ifelse(internalPars < :
Missing value or an infinity produced when evaluating the model
In addition: Warning message:
NaNs produced in: pnorm(q, mean, sd, lower.tail, log.p)
@@ -76,5 +76,5 @@ Waiting for profiling to be done...
5 0.23759 2.5786 2.3002 0.014680
6 0.23249 1.6806 2.2373 0.057193
7 0.14527 1.6496 1.9770 0.109561
-8 0.29877 0.7697 1.9363 0.458086
+8 0.29877 0.7697 1.9363 0.458090
>
diff --git a/tests/XY.Rout.save b/tests/XY.Rout.save
index 749e699..9172e08 100644
--- a/tests/XY.Rout.save
+++ b/tests/XY.Rout.save
@@ -1,6 +1,6 @@
-R : Copyright 2006, The R Foundation for Statistical Computing
-Version 2.3.1 beta (2006-05-18 r38119)
+R version 2.4.1 (2006-12-18)
+Copyright (C) 2006 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
diff --git a/tests/antifoul.Rout.save b/tests/antifoul.Rout.save
index 8f1d276..9cd818f 100644
--- a/tests/antifoul.Rout.save
+++ b/tests/antifoul.Rout.save
@@ -1,6 +1,6 @@
-R : Copyright 2006, The R Foundation for Statistical Computing
-Version 2.3.1 beta (2006-05-18 r38119)
+R version 2.4.1 (2006-12-18)
+Copyright (C) 2006 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
@@ -31,6 +31,6 @@ Waiting for profiling to be done...
1 TBT 38 135 -2.7093 2.3979 probit -0.16436 -0.26504 -0.056486 然
2 Zn Pyrithion 27 81 -2.1072 2.0000 probit -0.39792 -0.50783 -0.291561 然
sigma a b
-1 0.19286 -0.16436 0.67639
+1 0.19286 -0.16436 0.67637
2 0.22866 -0.39792 0.41696
>
diff --git a/tests/pyrithione.Rout.save b/tests/pyrithione.Rout.save
index b07d555..b5712db 100644
--- a/tests/pyrithione.Rout.save
+++ b/tests/pyrithione.Rout.save
@@ -1,6 +1,6 @@
-R : Copyright 2006, The R Foundation for Statistical Computing
-Version 2.3.1 beta (2006-05-18 r38119)
+R version 2.4.1 (2006-12-18)
+Copyright (C) 2006 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
@@ -23,11 +23,13 @@ Loading required package: RODBC
Na Pyrithion: Fitting data...
Waiting for profiling to be done...
-Error in prof$getProfile() : number of iterations exceeded maximum of 50
+Error in prof$getProfile() : attempt to apply non-function
Pyridin: Fitting data...
PyNO: Fitting data...
+Error in nls(response ~ linlogitf(dose, 1, f, logED50, b), data = tmp, :
+ Convergence failure: false convergence (8)
(PT)2: Fitting data...
Waiting for profiling to be done...
@@ -38,13 +40,8 @@ MSPHI: Fitting data...
Waiting for profiling to be done...
PyS: Fitting data...
-Error in nls(response ~ linlogitf(dose, 1, f, logED50, b), data = tmp, :
- step factor 0.000488281 reduced below 'minFactor' of 0.000976562
Waiting for profiling to be done...
-Error in numericDeriv(form[[3]], names(ind), env) :
- Missing value or an infinity produced when evaluating the model
-In addition: Warning message:
-NaNs produced in: pnorm(q, mean, sd, lower.tail, log.p)
+Error in prof$getProfile() : attempt to apply non-function
Zn Pyrithion: Fitting data...
Waiting for profiling to be done...
@@ -55,11 +52,6 @@ Waiting for profiling to be done...
Fe Pyrithion: Fitting data...
Waiting for profiling to be done...
-(PyS)2: Fitting data...
-Error in nls(response ~ linlogitf(dose, 1, f, logED50, b), data = tmp, :
- singular gradient
-Waiting for profiling to be done...
-
MSPT: Fitting data...
Waiting for profiling to be done...
@@ -68,34 +60,32 @@ Waiting for profiling to be done...
NaJ: Fitting data...
> print(rpyr,digits=3)
- Substance ndl n lld lhd mtype logED50 2.5% 97.5% unit sigma
-1 Na Pyrithion 20 108 -2.107 2.0 linlogit -0.346 NA NA 然 0.2086
-2 Pyridin 19 161 0.592 3.7 inactive NA NA NA 然 NA
-3 PyNO 19 81 0.592 3.7 no fit NA NA NA 然 0.0919
-4 (PT)2 19 81 -2.408 2.0 linlogit -0.420 -0.533 NA 然 0.2051
-5 MSO2P 28 108 -1.709 3.7 inactive NA NA NA 然 NA
-6 MSPHI 19 81 0.592 3.7 probit 3.663 3.555 3.8805 然 0.1294
-7 PyS 18 80 -0.408 3.0 probit 2.682 NA NA 然 0.1340
-8 Zn Pyrithion 27 81 -2.107 2.0 linlogit -0.413 -0.529 -0.2998 然 0.2288
-9 Cu Pyrithion 19 79 -2.408 2.0 linlogit -0.307 -0.475 -0.1544 然 0.2449
-10 Fe Pyrithion 19 81 -2.408 2.0 linlogit -0.353 -0.500 -0.2146 然 0.2338
-11 (PyS)2 20 81 -0.408 3.0 probit 1.784 1.673 1.8882 然 0.2330
-12 MSPT 18 108 -0.408 3.0 probit 2.138 2.071 2.2051 然 0.2288
-13 TBT 38 135 -2.709 2.4 linlogit -0.158 -0.260 -0.0505 然 0.1926
-14 NaJ 10 108 0.592 3.3 inactive NA NA NA 然 NA
- a b c
-1 -0.346 2.119 -0.2670
-2 NA NA NA
-3 NA NA NA
-4 -0.420 1.847 -0.5151
-5 NA NA NA
-6 3.663 0.439 NA
-7 2.682 0.125 NA
-8 -0.413 1.742 0.6108
-9 -0.307 1.015 -0.0490
-10 -0.353 1.182 0.0251
-11 1.784 0.410 NA
-12 2.138 0.211 NA
-13 -0.158 1.041 -0.0242
-14 NA NA NA
+ Substance ndl n lld lhd mtype logED50 2.5% 97.5% unit sigma
+1 Na Pyrithion 20 108 -2.107 2.0 linlogit -0.346 NA NA 然 0.209
+2 Pyridin 19 161 0.592 3.7 inactive NA NA NA 然 NA
+3 PyNO 19 81 0.592 3.7 no fit NA NA NA 然 0.107
+4 (PT)2 19 81 -2.408 2.0 linlogit -0.420 -0.533 NA 然 0.205
+5 MSO2P 28 108 -1.709 3.7 inactive NA NA NA 然 NA
+6 MSPHI 19 81 0.592 3.7 probit 3.663 3.555 3.8805 然 0.129
+7 PyS 18 80 -0.408 3.0 linlogit 2.756 NA NA 然 0.146
+8 Zn Pyrithion 27 81 -2.107 2.0 linlogit -0.413 -0.529 -0.2998 然 0.229
+9 Cu Pyrithion 19 79 -2.408 2.0 linlogit -0.307 -0.475 -0.1544 然 0.245
+10 Fe Pyrithion 19 81 -2.408 2.0 linlogit -0.353 -0.500 -0.2146 然 0.234
+11 MSPT 18 108 -0.408 3.0 probit 2.138 2.071 2.2051 然 0.229
+12 TBT 38 135 -2.709 2.4 linlogit -0.158 -0.260 -0.0505 然 0.193
+13 NaJ 10 108 0.592 3.3 inactive NA NA NA 然 NA
+ a b c
+1 -0.346 2.119 -0.266998
+2 NA NA NA
+3 NA NA NA
+4 -0.420 1.847 -0.515071
+5 NA NA NA
+6 3.663 0.439 NA
+7 2.756 0.743 -0.000993
+8 -0.413 1.742 0.610900
+9 -0.307 1.015 -0.048966
+10 -0.353 1.182 0.025082
+11 2.138 0.211 NA
+12 -0.158 1.041 -0.024165
+13 NA NA NA
>

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