Alexander Moßbrucker
2015-Dec-10 06:46 UTC
[R] problems with plotting/graphics after changing my computer
Dear all, I have worked on AKDEs using the package ctmm. Because my old computer often crashed, I bought a new one and reinstalled all the software, including r. All seemed to work fine, but when I wanted to plot several results I encountered error messages. I tried many different plots, some plots work, others not, I could't find out why. The error message is always " ..... is not a graphical parameter". I am using exactly the same r script and packages as before on my old computer. Would be great if you could help me with this....., best, Alex Please find below an example from the ctmm package:> # Load package and data> library(ctmm)> data(buffalo)> cilla <- buffalo[[1]]> # Fit a continuous-velocity model with tau ~ c(10 days, 1 hour)> # see help(variogram.fit)> m2 <- ctmm(tau=c(10*24*60^2,60^2))> M2 <- ctmm.fit(cilla,m2)> # Compute akde object> KD2 <- akde(cilla,M2)> # Plot data with AKDE contours> plot(cilla,AKDE=KD2)Warning messages:1: In plot.window(...) : "AKDE" is not a graphical parameter2: In plot.xy(xy, type, ...) : "AKDE" is not a graphical parameter3: In axis(side = side, at = at, labels = labels, ...) :"AKDE" is not a graphical parameter4: In axis(side = side, at = at, labels = labels, ...) : "AKDE" is not a graphical parameter5: In box(...) : "AKDE" is not a graphical parameter6: In title(...) : "AKDE" is not a graphical parameter7: In plot.xy(xy.coords(x, y), type = type, ...) : "AKDE" is not a graphical parameter <https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> This email has been sent from a virus-free computer protected by Avast. www.avast.com <https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> <#DDB4FAA8-2DD7-40BB-A1B8-4E2AA1F9FDF2> [[alternative HTML version deleted]]
PIKAL Petr
2015-Dec-10 07:23 UTC
[R] problems with plotting/graphics after changing my computer
Hi 1. Do not post in HTML. Your mail is corrupted and almost unreadable. 2. As far I I could decipher it, your plot call is plot(cilla,AKDE=KD2) According to docs the plot function does not have parameter called AKDE plot(x, CTMM=NULL, UD=NULL, level.UD=0.95, level=0.95, DF="CDF", col="red", col.level="black", col.DF="blue", col.grid="grey", fraction=1, add=FALSE, xlim=NULL, ylim=NULL, ...) but I believe that akde result shall be transferred to UD parameter. UD Optional UD object such as from the output of akde or list of such objects So your plot shall be called plot(cilla, UD=KD2) I do not have any experience with ctmm though, so I may completely miss the point. But if I am right, you could find all this in help page the same way as I did and probably quicker. Cheers Petr> -----Original Message----- > From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of > Alexander Mo?brucker > Sent: Thursday, December 10, 2015 7:47 AM > To: r-help at r-project.org > Subject: [R] problems with plotting/graphics after changing my computer > > Dear all, > > I have worked on AKDEs using the package ctmm. Because my old computer > often crashed, I bought a new one and reinstalled all the software, > including r. > > All seemed to work fine, but when I wanted to plot several results I > encountered error messages. > > I tried many different plots, some plots work, others not, I could't > find > out why. The error message is always " ..... is not a graphical > parameter". > I am using exactly the same r script and packages as before on my old > computer. > > Would be great if you could help me with this....., best, Alex > > Please find below an example from the ctmm package: > > > # Load package and data> library(ctmm)> data(buffalo)> cilla <- > buffalo[[1]]> # Fit a continuous-velocity model with tau ~ c(10 days, 1 > hour)> # see help(variogram.fit)> m2 <- ctmm(tau=c(10*24*60^2,60^2))> > M2 <- ctmm.fit(cilla,m2)> # Compute akde object> KD2 <- akde(cilla,M2)> > # Plot data with AKDE contours> plot(cilla,AKDE=KD2)Warning messages:1: > In plot.window(...) : "AKDE" is not a graphical parameter2: In > plot.xy(xy, type, ...) : "AKDE" is not a graphical parameter3: In > axis(side = side, at = at, labels = labels, ...) : > "AKDE" is not a graphical parameter4: In axis(side = side, at = at, > labels = labels, ...) : > "AKDE" is not a graphical parameter5: In box(...) : "AKDE" is not a > graphical parameter6: In title(...) : "AKDE" is not a graphical > parameter7: In plot.xy(xy.coords(x, y), type = type, ...) : > "AKDE" is not a graphical parameter > > > > > > <https://www.avast.com/lp-safe- > emailing?utm_medium=email&utm_source=link&utm_campaign=sig- > email&utm_content=webmail> > This > email has been sent from a virus-free computer protected by Avast. > www.avast.com > <https://www.avast.com/lp-safe- > emailing?utm_medium=email&utm_source=link&utm_campaign=sig- > email&utm_content=webmail> > <#DDB4FAA8-2DD7-40BB-A1B8-4E2AA1F9FDF2> > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > 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.________________________________ Tento e-mail a jak?koliv k n?mu p?ipojen? dokumenty jsou d?v?rn? a jsou ur?eny pouze jeho adres?t?m. Jestli?e jste obdr?el(a) tento e-mail omylem, informujte laskav? neprodlen? jeho odes?latele. Obsah tohoto emailu i s p??lohami a jeho kopie vyma?te ze sv?ho syst?mu. Nejste-li zam??len?m adres?tem tohoto emailu, nejste opr?vn?ni tento email jakkoliv u??vat, roz?i?ovat, kop?rovat ?i zve?ej?ovat. Odes?latel e-mailu neodpov?d? za eventu?ln? ?kodu zp?sobenou modifikacemi ?i zpo?d?n?m p?enosu e-mailu. V p??pad?, ?e je tento e-mail sou??st? obchodn?ho jedn?n?: - vyhrazuje si odes?latel pr?vo ukon?it kdykoliv jedn?n? o uzav?en? smlouvy, a to z jak?hokoliv d?vodu i bez uveden? d?vodu. - a obsahuje-li nab?dku, je adres?t opr?vn?n nab?dku bezodkladn? p?ijmout; Odes?latel tohoto e-mailu (nab?dky) vylu?uje p?ijet? nab?dky ze strany p??jemce s dodatkem ?i odchylkou. - trv? odes?latel na tom, ?e p??slu?n? smlouva je uzav?ena teprve v?slovn?m dosa?en?m shody na v?ech jej?ch n?le?itostech. - odes?latel tohoto emailu informuje, ?e nen? opr?vn?n uzav?rat za spole?nost ??dn? smlouvy s v?jimkou p??pad?, kdy k tomu byl p?semn? zmocn?n nebo p?semn? pov??en a takov? pov??en? nebo pln? moc byly adres?tovi tohoto emailu p??padn? osob?, kterou adres?t zastupuje, p?edlo?eny nebo jejich existence je adres?tovi ?i osob? j?m zastoupen? zn?m?. This e-mail and any documents attached to it may be confidential and are intended only for its intended recipients. If you received this e-mail by mistake, please immediately inform its sender. Delete the contents of this e-mail with all attachments and its copies from your system. If you are not the intended recipient of this e-mail, you are not authorized to use, disseminate, copy or disclose this e-mail in any manner. The sender of this e-mail shall not be liable for any possible damage caused by modifications of the e-mail or by delay with transfer of the email. In case that this e-mail forms part of business dealings: - the sender reserves the right to end negotiations about entering into a contract in any time, for any reason, and without stating any reasoning. - if the e-mail contains an offer, the recipient is entitled to immediately accept such offer; The sender of this e-mail (offer) excludes any acceptance of the offer on the part of the recipient containing any amendment or variation. - the sender insists on that the respective contract is concluded only upon an express mutual agreement on all its aspects. - the sender of this e-mail informs that he/she is not authorized to enter into any contracts on behalf of the company except for cases in which he/she is expressly authorized to do so in writing, and such authorization or power of attorney is submitted to the recipient or the person represented by the recipient, or the existence of such authorization is known to the recipient of the person represented by the recipient.
PIKAL Petr
2015-Dec-10 08:04 UTC
[R] problems with plotting/graphics after changing my computer
Hi Reply to the list too, somebody could answer your question better than myself. You say that it is the same script. OK. But is it also the same version of R and ctmm? Cheers Petr From: Alexander Mo?brucker [mailto:islandelephants at gmail.com] Sent: Thursday, December 10, 2015 8:50 AM To: PIKAL Petr Subject: Re: [R] problems with plotting/graphics after changing my computer Hi Petr, thank you for your quick reply. I have the script now attached as word doc, hope that is readable now. There must be another problem, because I could plot the AKDE very easily on my old computer, using exactly the same script and data and the same commands and all....thus it is very strange if suddenly on my new computer R doesn't recognize the command any more.... I also attached the ctmm PDF, the example is directly taken from this PDF, from the section "akde" Best, Alex [https://ipmcdn.avast.com/images/logo-avast-v1.png]<https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> This email has been sent from a virus-free computer protected by Avast. www.avast.com<https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> 2015-12-10 14:23 GMT+07:00 PIKAL Petr <petr.pikal at precheza.cz<mailto:petr.pikal at precheza.cz>>: Hi 1. Do not post in HTML. Your mail is corrupted and almost unreadable. 2. As far I I could decipher it, your plot call is plot(cilla,AKDE=KD2) According to docs the plot function does not have parameter called AKDE plot(x, CTMM=NULL, UD=NULL, level.UD=0.95, level=0.95, DF="CDF", col="red", col.level="black", col.DF="blue", col.grid="grey", fraction=1, add=FALSE, xlim=NULL, ylim=NULL, ...) but I believe that akde result shall be transferred to UD parameter. UD Optional UD object such as from the output of akde or list of such objects So your plot shall be called plot(cilla, UD=KD2) I do not have any experience with ctmm though, so I may completely miss the point. But if I am right, you could find all this in help page the same way as I did and probably quicker. Cheers Petr> -----Original Message----- > From: R-help [mailto:r-help-bounces at r-project.org<mailto:r-help-bounces at r-project.org>] On Behalf Of > Alexander Mo?brucker > Sent: Thursday, December 10, 2015 7:47 AM > To: r-help at r-project.org<mailto:r-help at r-project.org> > Subject: [R] problems with plotting/graphics after changing my computer > > Dear all, > > I have worked on AKDEs using the package ctmm. Because my old computer > often crashed, I bought a new one and reinstalled all the software, > including r. > > All seemed to work fine, but when I wanted to plot several results I > encountered error messages. > > I tried many different plots, some plots work, others not, I could't > find > out why. The error message is always " ..... is not a graphical > parameter". > I am using exactly the same r script and packages as before on my old > computer. > > Would be great if you could help me with this....., best, Alex > > Please find below an example from the ctmm package: > > > # Load package and data> library(ctmm)> data(buffalo)> cilla <- > buffalo[[1]]> # Fit a continuous-velocity model with tau ~ c(10 days, 1 > hour)> # see help(variogram.fit)> m2 <- ctmm(tau=c(10*24*60^2,60^2))> > M2 <- ctmm.fit(cilla,m2)> # Compute akde object> KD2 <- akde(cilla,M2)> > # Plot data with AKDE contours> plot(cilla,AKDE=KD2)Warning messages:1: > In plot.window(...) : "AKDE" is not a graphical parameter2: In > plot.xy(xy, type, ...) : "AKDE" is not a graphical parameter3: In > axis(side = side, at = at, labels = labels, ...) : > "AKDE" is not a graphical parameter4: In axis(side = side, at = at, > labels = labels, ...) : > "AKDE" is not a graphical parameter5: In box(...) : "AKDE" is not a > graphical parameter6: In title(...) : "AKDE" is not a graphical > parameter7: In plot.xy(xy.coords(x, y), type = type, ...) : > "AKDE" is not a graphical parameter > > > > >________________________________ Tento e-mail a jak?koliv k n?mu p?ipojen? dokumenty jsou d?v?rn? a jsou ur?eny pouze jeho adres?t?m. Jestli?e jste obdr?el(a) tento e-mail omylem, informujte laskav? neprodlen? jeho odes?latele. Obsah tohoto emailu i s p??lohami a jeho kopie vyma?te ze sv?ho syst?mu. Nejste-li zam??len?m adres?tem tohoto emailu, nejste opr?vn?ni tento email jakkoliv u??vat, roz?i?ovat, kop?rovat ?i zve?ej?ovat. Odes?latel e-mailu neodpov?d? za eventu?ln? ?kodu zp?sobenou modifikacemi ?i zpo?d?n?m p?enosu e-mailu. V p??pad?, ?e je tento e-mail sou??st? obchodn?ho jedn?n?: - vyhrazuje si odes?latel pr?vo ukon?it kdykoliv jedn?n? o uzav?en? smlouvy, a to z jak?hokoliv d?vodu i bez uveden? d?vodu. - a obsahuje-li nab?dku, je adres?t opr?vn?n nab?dku bezodkladn? p?ijmout; Odes?latel tohoto e-mailu (nab?dky) vylu?uje p?ijet? nab?dky ze strany p??jemce s dodatkem ?i odchylkou. - trv? odes?latel na tom, ?e p??slu?n? smlouva je uzav?ena teprve v?slovn?m dosa?en?m shody na v?ech jej?ch n?le?itostech. - odes?latel tohoto emailu informuje, ?e nen? opr?vn?n uzav?rat za spole?nost ??dn? smlouvy s v?jimkou p??pad?, kdy k tomu byl p?semn? zmocn?n nebo p?semn? pov??en a takov? pov??en? nebo pln? moc byly adres?tovi tohoto emailu p??padn? osob?, kterou adres?t zastupuje, p?edlo?eny nebo jejich existence je adres?tovi ?i osob? j?m zastoupen? zn?m?. This e-mail and any documents attached to it may be confidential and are intended only for its intended recipients. If you received this e-mail by mistake, please immediately inform its sender. Delete the contents of this e-mail with all attachments and its copies from your system. If you are not the intended recipient of this e-mail, you are not authorized to use, disseminate, copy or disclose this e-mail in any manner. The sender of this e-mail shall not be liable for any possible damage caused by modifications of the e-mail or by delay with transfer of the email. In case that this e-mail forms part of business dealings: - the sender reserves the right to end negotiations about entering into a contract in any time, for any reason, and without stating any reasoning. - if the e-mail contains an offer, the recipient is entitled to immediately accept such offer; The sender of this e-mail (offer) excludes any acceptance of the offer on the part of the recipient containing any amendment or variation. - the sender insists on that the respective contract is concluded only upon an express mutual agreement on all its aspects. - the sender of this e-mail informs that he/she is not authorized to enter into any contracts on behalf of the company except for cases in which he/she is expressly authorized to do so in writing, and such authorization or power of attorney is submitted to the recipient or the person represented by the recipient, or the existence of such authorization is known to the recipient of the person represented by the recipient. [[alternative HTML version deleted]]
Alexander Moßbrucker
2015-Dec-10 08:28 UTC
[R] problems with plotting/graphics after changing my computer
I am not surve, as I cannot start the crashed computer I used before. I guess it might be the same versions, I installed them on my crashed computer in October, and now reinstalled them on my new computer in December, thus only 2-3 months difference. <https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> This email has been sent from a virus-free computer protected by Avast. www.avast.com <https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> <#DDB4FAA8-2DD7-40BB-A1B8-4E2AA1F9FDF2> 2015-12-10 15:04 GMT+07:00 PIKAL Petr <petr.pikal at precheza.cz>:> Hi > > > > Reply to the list too, somebody could answer your question better than > myself. > > > > You say that it is the same script. OK. But is it also the same version of > R and ctmm? > > > > Cheers > > Petr > > > > *From:* Alexander Mo?brucker [mailto:islandelephants at gmail.com] > *Sent:* Thursday, December 10, 2015 8:50 AM > *To:* PIKAL Petr > *Subject:* Re: [R] problems with plotting/graphics after changing my > computer > > > > Hi Petr, > > thank you for your quick reply. I have the script now attached as word > doc, hope that is readable now. > > There must be another problem, because I could plot the AKDE very easily > on my old computer, using exactly the same script and data and the same > commands and all....thus it is very strange if suddenly on my new computer > R doesn't recognize the command any more.... > > I also attached the ctmm PDF, the example is directly taken from this PDF, > from the section "akde" > > > > Best, Alex > > > > > <https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> > > This email has been sent from a virus-free computer protected by Avast. > www.avast.com > <https://www.avast.com/lp-safe-emailing?utm_medium=email&utm_source=link&utm_campaign=sig-email&utm_content=webmail> > > > > 2015-12-10 14:23 GMT+07:00 PIKAL Petr <petr.pikal at precheza.cz>: > > Hi > > 1. Do not post in HTML. Your mail is corrupted and almost unreadable. > 2. As far I I could decipher it, your plot call is > > plot(cilla,AKDE=KD2) > > According to docs the plot function does not have parameter called AKDE > > plot(x, CTMM=NULL, UD=NULL, level.UD=0.95, level=0.95, DF="CDF", col="red", > col.level="black", col.DF="blue", col.grid="grey", fraction=1, add=FALSE, > xlim=NULL, > ylim=NULL, ...) > > but I believe that akde result shall be transferred to UD parameter. > > UD Optional UD object such as from the output of akde or list of such > objects > > So your plot shall be called > > plot(cilla, UD=KD2) > > I do not have any experience with ctmm though, so I may completely miss > the point. But if I am right, you could find all this in help page the same > way as I did and probably quicker. > > Cheers > Petr > > > > -----Original Message----- > > From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of > > Alexander Mo?brucker > > Sent: Thursday, December 10, 2015 7:47 AM > > To: r-help at r-project.org > > Subject: [R] problems with plotting/graphics after changing my computer > > > > Dear all, > > > > I have worked on AKDEs using the package ctmm. Because my old computer > > often crashed, I bought a new one and reinstalled all the software, > > including r. > > > > All seemed to work fine, but when I wanted to plot several results I > > encountered error messages. > > > > I tried many different plots, some plots work, others not, I could't > > find > > out why. The error message is always " ..... is not a graphical > > parameter". > > I am using exactly the same r script and packages as before on my old > > computer. > > > > Would be great if you could help me with this....., best, Alex > > > > Please find below an example from the ctmm package: > > > > > # Load package and data> library(ctmm)> data(buffalo)> cilla <- > > buffalo[[1]]> # Fit a continuous-velocity model with tau ~ c(10 days, 1 > > hour)> # see help(variogram.fit)> m2 <- ctmm(tau=c(10*24*60^2,60^2))> > > M2 <- ctmm.fit(cilla,m2)> # Compute akde object> KD2 <- akde(cilla,M2)> > > # Plot data with AKDE contours> plot(cilla,AKDE=KD2)Warning messages:1: > > In plot.window(...) : "AKDE" is not a graphical parameter2: In > > plot.xy(xy, type, ...) : "AKDE" is not a graphical parameter3: In > > axis(side = side, at = at, labels = labels, ...) : > > "AKDE" is not a graphical parameter4: In axis(side = side, at = at, > > labels = labels, ...) : > > "AKDE" is not a graphical parameter5: In box(...) : "AKDE" is not a > > graphical parameter6: In title(...) : "AKDE" is not a graphical > > parameter7: In plot.xy(xy.coords(x, y), type = type, ...) : > > "AKDE" is not a graphical parameter > > > > > > > > > > > > > > ------------------------------ > Tento e-mail a jak?koliv k n?mu p?ipojen? dokumenty jsou d?v?rn? a jsou > ur?eny pouze jeho adres?t?m. > Jestli?e jste obdr?el(a) tento e-mail omylem, informujte laskav? > neprodlen? jeho odes?latele. Obsah tohoto emailu i s p??lohami a jeho kopie > vyma?te ze sv?ho syst?mu. > Nejste-li zam??len?m adres?tem tohoto emailu, nejste opr?vn?ni tento email > jakkoliv u??vat, roz?i?ovat, kop?rovat ?i zve?ej?ovat. > Odes?latel e-mailu neodpov?d? za eventu?ln? ?kodu zp?sobenou modifikacemi > ?i zpo?d?n?m p?enosu e-mailu. > > V p??pad?, ?e je tento e-mail sou??st? obchodn?ho jedn?n?: > - vyhrazuje si odes?latel pr?vo ukon?it kdykoliv jedn?n? o uzav?en? > smlouvy, a to z jak?hokoliv d?vodu i bez uveden? d?vodu. > - a obsahuje-li nab?dku, je adres?t opr?vn?n nab?dku bezodkladn? p?ijmout; > Odes?latel tohoto e-mailu (nab?dky) vylu?uje p?ijet? nab?dky ze strany > p??jemce s dodatkem ?i odchylkou. > - trv? odes?latel na tom, ?e p??slu?n? smlouva je uzav?ena teprve > v?slovn?m dosa?en?m shody na v?ech jej?ch n?le?itostech. > - odes?latel tohoto emailu informuje, ?e nen? opr?vn?n uzav?rat za > spole?nost ??dn? smlouvy s v?jimkou p??pad?, kdy k tomu byl p?semn? zmocn?n > nebo p?semn? pov??en a takov? pov??en? nebo pln? moc byly adres?tovi tohoto > emailu p??padn? osob?, kterou adres?t zastupuje, p?edlo?eny nebo jejich > existence je adres?tovi ?i osob? j?m zastoupen? zn?m?. > > This e-mail and any documents attached to it may be confidential and are > intended only for its intended recipients. > If you received this e-mail by mistake, please immediately inform its > sender. Delete the contents of this e-mail with all attachments and its > copies from your system. > If you are not the intended recipient of this e-mail, you are not > authorized to use, disseminate, copy or disclose this e-mail in any manner. > The sender of this e-mail shall not be liable for any possible damage > caused by modifications of the e-mail or by delay with transfer of the > email. > > In case that this e-mail forms part of business dealings: > - the sender reserves the right to end negotiations about entering into a > contract in any time, for any reason, and without stating any reasoning. > - if the e-mail contains an offer, the recipient is entitled to > immediately accept such offer; The sender of this e-mail (offer) excludes > any acceptance of the offer on the part of the recipient containing any > amendment or variation. > - the sender insists on that the respective contract is concluded only > upon an express mutual agreement on all its aspects. > - the sender of this e-mail informs that he/she is not authorized to enter > into any contracts on behalf of the company except for cases in which > he/she is expressly authorized to do so in writing, and such authorization > or power of attorney is submitted to the recipient or the person > represented by the recipient, or the existence of such authorization is > known to the recipient of the person represented by the recipient. >[[alternative HTML version deleted]]