Mohammad Ehsanul Karim
2007-Apr-20 15:44 UTC
[R] Hiding "Warning messages" in coxme output
Dear list, I have been trying to use coxme in R 2.3.1. When I use coxme in the following data sim.fr1, i get "Warning messages: using 'as.environment(NULL)' is deprecated" Why does it occur? How can I hide such warning message, especially when coxme is under a loop? Mohammad Ehsanul Karim (Institute of Statistical Research and Training, University of Dhaka)> fit.me1<-coxme(Surv(times,censored) ~var1+var2+var3+var4+var5+var6, data=sim.fr1, random~1|id) Warning messages: 1: using 'as.environment(NULL)' is deprecated 2: using 'as.environment(NULL)' is deprecated 3: using 'as.environment(NULL)' is deprecated> sim.fr1id var1 var2 var3 1 4 50.04399 239.8418 56.00348 2 2 40.75726 214.1387 61.95184 3 2 48.58170 225.4939 49.14774 4 1 68.02430 196.4890 55.83904 5 1 53.18038 219.8787 53.26361 6 1 60.42044 232.9754 47.49109 7 3 52.46432 212.7600 40.91770 8 1 57.45639 224.0846 51.53311 9 5 52.06026 183.2561 45.23863 10 3 65.61341 236.3037 57.44500 11 3 44.76174 202.1090 57.28233 12 4 46.84952 269.7694 53.07128 13 3 64.32224 174.5415 49.59961 14 2 56.43505 202.7242 42.82385 15 2 54.60324 229.3141 52.37811 16 3 59.79979 223.4841 47.89820 17 1 70.27831 201.5328 50.13637 18 1 60.60456 252.3765 54.89354 19 1 54.19388 205.0361 47.90004 20 3 47.20526 215.2096 45.88214 21 2 66.63391 262.5909 47.07526 22 5 35.59189 207.1023 47.88421 23 4 47.90704 255.9449 44.68653 24 1 38.67878 226.9713 44.69175 25 1 58.38346 194.3363 52.31043 26 2 55.56699 188.0691 47.11112 27 3 60.14032 223.7305 43.05751 28 4 47.86896 216.3541 43.72464 29 4 60.68309 214.9878 46.29433 30 3 51.09243 225.0828 56.85092 31 2 53.60470 266.2956 41.77462 32 2 59.01639 239.9694 57.52918 33 4 45.69305 178.3362 56.72676 34 5 47.64128 217.0027 46.55197 35 4 67.95317 245.0579 43.73846 36 3 47.23630 247.1667 48.90833 37 5 69.60160 218.0039 47.88746 38 4 67.91754 225.0661 47.69852 39 2 57.73782 176.2204 52.55087 40 5 47.00849 247.6134 49.36938 41 4 73.32817 171.4144 54.24920 42 1 60.49102 261.6575 52.54041 43 5 61.09394 208.2990 49.63053 44 4 58.68786 196.3652 40.75177 45 2 71.02560 216.8412 47.30145 46 5 53.48662 229.7460 54.09643 47 5 48.88694 190.6449 46.87681 48 5 62.71642 251.0692 34.96885 49 3 74.22934 256.0549 56.12771 50 5 58.75543 247.3048 53.20891 var4 var5 var6 times 1 141.8141 1 0 0.0088438147 2 134.9364 1 0 0.0088438147 3 148.7873 0 0 0.0088438147 4 141.6457 1 0 0.0088438147 5 129.0089 0 0 0.0088438147 6 148.4601 1 0 0.0085473350 7 136.8948 1 0 0.0080652111 8 151.7048 1 1 0.0074827612 9 141.4720 0 0 0.0065128176 10 139.4224 0 0 0.0060424132 11 151.0035 1 0 0.0052687628 12 148.9482 0 0 0.0052599672 13 129.2505 1 0 0.0045640074 14 148.3178 0 0 0.0044079121 15 136.7365 0 0 0.0043426240 16 140.9471 1 0 0.0043169195 17 161.5255 1 0 0.0036934807 18 144.5947 0 0 0.0035073027 19 132.7104 1 1 0.0030682908 20 142.7094 1 1 0.0029271986 21 145.3469 1 0 0.0028454803 22 136.0977 0 0 0.0027955814 23 147.9991 0 1 0.0023559577 24 137.6689 1 0 0.0022944927 25 143.8760 0 0 0.0021630910 26 138.5741 1 1 0.0021491140 27 136.9094 1 1 0.0020458238 28 144.5598 1 0 0.0019319740 29 140.1745 1 0 0.0018676570 30 138.0642 0 0 0.0015548233 31 144.8542 0 0 0.0014358009 32 144.7343 1 1 0.0013238184 33 141.0691 1 1 0.0012197567 34 135.2025 0 1 0.0011901152 35 148.0699 0 0 0.0011596276 36 144.6939 0 0 0.0010145029 37 149.5679 0 0 0.0008390243 38 139.2625 1 0 0.0007960708 39 140.1564 0 0 0.0007257659 40 148.4176 1 0 0.0007173467 41 140.1095 1 1 0.0006009356 42 147.3081 1 0 0.0005399407 43 142.1086 1 1 0.0005150721 44 148.8549 1 1 0.0004632902 45 143.5331 0 0 0.0003720645 46 153.2280 1 0 0.0003566726 47 138.3347 0 1 0.0002300687 48 141.0115 1 0 0.0001998501 49 137.9199 1 0 0.0001416588 50 141.9770 0 1 0.0001021952 censored Frailty 1 0 0.8476022 2 0 0.8935796 3 0 0.8935796 4 0 0.0432273 5 0 0.0432273 6 1 0.0432273 7 1 0.4839272 8 1 0.0432273 9 1 2.0667992 10 1 0.4839272 11 1 0.4839272 12 1 0.8476022 13 1 0.4839272 14 1 0.8935796 15 1 0.8935796 16 1 0.4839272 17 1 0.0432273 18 1 0.0432273 19 1 0.0432273 20 1 0.4839272 21 1 0.8935796 22 1 2.0667992 23 1 0.8476022 24 1 0.0432273 25 1 0.0432273 26 1 0.8935796 27 1 0.4839272 28 1 0.8476022 29 1 0.8476022 30 1 0.4839272 31 1 0.8935796 32 1 0.8935796 33 1 0.8476022 34 1 2.0667992 35 1 0.8476022 36 1 0.4839272 37 1 2.0667992 38 1 0.8476022 39 1 0.8935796 40 1 2.0667992 41 1 0.8476022 42 1 0.0432273 43 1 2.0667992 44 1 0.8476022 45 1 0.8935796 46 1 2.0667992 47 1 2.0667992 48 1 2.0667992 49 1 0.4839272 50 1 2.0667992
Try: options(warn=-1) To restore: options(warn=1) -- Henrique Dallazuanna Curitiba-Paraná-Brasil 25° 25' 40" S 49° 16' 22" O<http://maps.google.com/maps?f=q&hl=en&q=Curitiba,+Brazil&layer=&ie=UTF8&z=18&ll=-25.448315,-49.276916&spn=0.002054,0.005407&t=k&om=1> On 4/20/07, Mohammad Ehsanul Karim <wildscop@yahoo.com> wrote:> > Dear list, > > I have been trying to use coxme in R 2.3.1. > When I use coxme in the following data sim.fr1, i get > "Warning messages: using 'as.environment(NULL)' is > deprecated" > > Why does it occur? > > How can I hide such warning message, > especially when coxme is under a loop? > > Mohammad Ehsanul Karim (Institute of Statistical > Research and Training, University of Dhaka) > > > fit.me1<-coxme(Surv(times,censored) ~ > var1+var2+var3+var4+var5+var6, data=sim.fr1, random> ~1|id) > > Warning messages: > 1: using 'as.environment(NULL)' is deprecated > 2: using 'as.environment(NULL)' is deprecated > 3: using 'as.environment(NULL)' is deprecated > > > sim.fr1 > id var1 var2 var3 > 1 4 50.04399 239.8418 56.00348 > 2 2 40.75726 214.1387 61.95184 > 3 2 48.58170 225.4939 49.14774 > 4 1 68.02430 196.4890 55.83904 > 5 1 53.18038 219.8787 53.26361 > 6 1 60.42044 232.9754 47.49109 > 7 3 52.46432 212.7600 40.91770 > 8 1 57.45639 224.0846 51.53311 > 9 5 52.06026 183.2561 45.23863 > 10 3 65.61341 236.3037 57.44500 > 11 3 44.76174 202.1090 57.28233 > 12 4 46.84952 269.7694 53.07128 > 13 3 64.32224 174.5415 49.59961 > 14 2 56.43505 202.7242 42.82385 > 15 2 54.60324 229.3141 52.37811 > 16 3 59.79979 223.4841 47.89820 > 17 1 70.27831 201.5328 50.13637 > 18 1 60.60456 252.3765 54.89354 > 19 1 54.19388 205.0361 47.90004 > 20 3 47.20526 215.2096 45.88214 > 21 2 66.63391 262.5909 47.07526 > 22 5 35.59189 207.1023 47.88421 > 23 4 47.90704 255.9449 44.68653 > 24 1 38.67878 226.9713 44.69175 > 25 1 58.38346 194.3363 52.31043 > 26 2 55.56699 188.0691 47.11112 > 27 3 60.14032 223.7305 43.05751 > 28 4 47.86896 216.3541 43.72464 > 29 4 60.68309 214.9878 46.29433 > 30 3 51.09243 225.0828 56.85092 > 31 2 53.60470 266.2956 41.77462 > 32 2 59.01639 239.9694 57.52918 > 33 4 45.69305 178.3362 56.72676 > 34 5 47.64128 217.0027 46.55197 > 35 4 67.95317 245.0579 43.73846 > 36 3 47.23630 247.1667 48.90833 > 37 5 69.60160 218.0039 47.88746 > 38 4 67.91754 225.0661 47.69852 > 39 2 57.73782 176.2204 52.55087 > 40 5 47.00849 247.6134 49.36938 > 41 4 73.32817 171.4144 54.24920 > 42 1 60.49102 261.6575 52.54041 > 43 5 61.09394 208.2990 49.63053 > 44 4 58.68786 196.3652 40.75177 > 45 2 71.02560 216.8412 47.30145 > 46 5 53.48662 229.7460 54.09643 > 47 5 48.88694 190.6449 46.87681 > 48 5 62.71642 251.0692 34.96885 > 49 3 74.22934 256.0549 56.12771 > 50 5 58.75543 247.3048 53.20891 > var4 var5 var6 times > 1 141.8141 1 0 0.0088438147 > 2 134.9364 1 0 0.0088438147 > 3 148.7873 0 0 0.0088438147 > 4 141.6457 1 0 0.0088438147 > 5 129.0089 0 0 0.0088438147 > 6 148.4601 1 0 0.0085473350 > 7 136.8948 1 0 0.0080652111 > 8 151.7048 1 1 0.0074827612 > 9 141.4720 0 0 0.0065128176 > 10 139.4224 0 0 0.0060424132 > 11 151.0035 1 0 0.0052687628 > 12 148.9482 0 0 0.0052599672 > 13 129.2505 1 0 0.0045640074 > 14 148.3178 0 0 0.0044079121 > 15 136.7365 0 0 0.0043426240 > 16 140.9471 1 0 0.0043169195 > 17 161.5255 1 0 0.0036934807 > 18 144.5947 0 0 0.0035073027 > 19 132.7104 1 1 0.0030682908 > 20 142.7094 1 1 0.0029271986 > 21 145.3469 1 0 0.0028454803 > 22 136.0977 0 0 0.0027955814 > 23 147.9991 0 1 0.0023559577 > 24 137.6689 1 0 0.0022944927 > 25 143.8760 0 0 0.0021630910 > 26 138.5741 1 1 0.0021491140 > 27 136.9094 1 1 0.0020458238 > 28 144.5598 1 0 0.0019319740 > 29 140.1745 1 0 0.0018676570 > 30 138.0642 0 0 0.0015548233 > 31 144.8542 0 0 0.0014358009 > 32 144.7343 1 1 0.0013238184 > 33 141.0691 1 1 0.0012197567 > 34 135.2025 0 1 0.0011901152 > 35 148.0699 0 0 0.0011596276 > 36 144.6939 0 0 0.0010145029 > 37 149.5679 0 0 0.0008390243 > 38 139.2625 1 0 0.0007960708 > 39 140.1564 0 0 0.0007257659 > 40 148.4176 1 0 0.0007173467 > 41 140.1095 1 1 0.0006009356 > 42 147.3081 1 0 0.0005399407 > 43 142.1086 1 1 0.0005150721 > 44 148.8549 1 1 0.0004632902 > 45 143.5331 0 0 0.0003720645 > 46 153.2280 1 0 0.0003566726 > 47 138.3347 0 1 0.0002300687 > 48 141.0115 1 0 0.0001998501 > 49 137.9199 1 0 0.0001416588 > 50 141.9770 0 1 0.0001021952 > censored Frailty > 1 0 0.8476022 > 2 0 0.8935796 > 3 0 0.8935796 > 4 0 0.0432273 > 5 0 0.0432273 > 6 1 0.0432273 > 7 1 0.4839272 > 8 1 0.0432273 > 9 1 2.0667992 > 10 1 0.4839272 > 11 1 0.4839272 > 12 1 0.8476022 > 13 1 0.4839272 > 14 1 0.8935796 > 15 1 0.8935796 > 16 1 0.4839272 > 17 1 0.0432273 > 18 1 0.0432273 > 19 1 0.0432273 > 20 1 0.4839272 > 21 1 0.8935796 > 22 1 2.0667992 > 23 1 0.8476022 > 24 1 0.0432273 > 25 1 0.0432273 > 26 1 0.8935796 > 27 1 0.4839272 > 28 1 0.8476022 > 29 1 0.8476022 > 30 1 0.4839272 > 31 1 0.8935796 > 32 1 0.8935796 > 33 1 0.8476022 > 34 1 2.0667992 > 35 1 0.8476022 > 36 1 0.4839272 > 37 1 2.0667992 > 38 1 0.8476022 > 39 1 0.8935796 > 40 1 2.0667992 > 41 1 0.8476022 > 42 1 0.0432273 > 43 1 2.0667992 > 44 1 0.8476022 > 45 1 0.8935796 > 46 1 2.0667992 > 47 1 2.0667992 > 48 1 2.0667992 > 49 1 0.4839272 > 50 1 2.0667992 > > ______________________________________________ > R-help@stat.math.ethz.ch mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide > http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. >[[alternative HTML version deleted]]
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