Hi Nandana,
Ah, I see. You should be able to install the development version using the
instructions here:
You shouldn't see any errors with r.iq there since it doesn't use that
server. Hope that helps!
Cheers,
Matt
~~~~~~~~~~~
Matthew Blackwell
Assistant Professor of Government
Harvard University
url:
On Thu, Apr 6, 2017 at 3:56 AM, Nandana Sengupta <nandana(a)uchicago.edu>
wrote:
Thanks for your replies. I have tried using the stable
version the
imputation gets completed about 50% of the time but I get the following
output and error the rest of the time:
-- Imputation 1 --
setting up EM chain indicies
1(3338) 2(3134) 3(2490) 4(1474) 5(665) 6(302) 7(159) 8(96) 9(72) 10(46) 11(24)
12(18) 13(14) 14(7) 15(5) 16(2) 17(2) 18(2) 19(2) 20
(1) 21(1) 22(1) 23(1) 24(1) 25(1) 26(1) 27(1) 28(1) 29(1) 30(1) 31(1) 32(1) 33(1) 34(1)
35(1) 36(1) 37(1) 38(1) 39(1) 40
(1) 41(1) 42(1) 43(1) 44(1) 45(1) 46(1) 47(1) 48(1) 49(1) 50(1) 51(1) 52(1) 53(1) 54(1)
55(1) 56(1) 57(1) 58(1) 59(1) 60
(1) 61(1) 62(1) 63(1) 64(1) 65(1) 66(1) 67(1) 68(1) 69(1) 70(1) 71(1) 72(1) 73(1) 74(1)
75(1) 76(1) 77(1) 78(1) 79(1) 80
(1) 81(1) 82(1) 83(1) 84(1) 85(1) 86(1) 87(1) 88(1) 89(1) 90(1) 91(1) 92(1) 93(1) 94(1)
95(1) 96(1) 97(1) 98(1) 99(1) 100
(1) 101(1) 102(1) 103(1) 104(1) 105(1) 106(1) 107(0)
error: Mat::operator(): index out of bounds
terminate called after throwing an instance of 'std::logic_error'
what(): Mat::operator(): index out of bounds
For the same dataset, the imputation ran smoothly on the development
version, which is why I was asking about the development version. Not sure
what the source of the error is.
Any suggestions you have to deal with this would be very useful.
Thanks,
Nandana
------------------------------
*From:* Matt Blackwell [mblackwell(a)gov.harvard.edu]
*Sent:* Wednesday, April 05, 2017 8:43 PM
*To:* Nandana Sengupta
*Cc:* amelia(a)lists.gking.harvard.edu
*Subject:* Re: Amelia Development Version not installing
Hi Nandana,
Yep, the r.iq
<https://urldefense.proofpoint.com/v2/url?u=http-3A__r.iq&d=CwMF-g&c=WO-RGvefibhHBZq3fL85hQ&r=EwICq0J5pL8CwgEJz8qkmauGonk0XmiLpxcYOEgk2a0&m=6qwSJPZYCpRARRyttQr5sruj40pkZd5pkdTLcINpqdA&s=T_CyFuPGH-66qlzLMW7NVSmFH6cW0EKvX2G2-32Afbk&e=>
servers don't currently host development versions of Amelia, but you can
install the most recent stable version from CRAN using the following:
install.packages("Amelia", repos = "http://cran.r-project.org
<https://urldefense.proofpoint.com/v2/url?u=http-3A__cran.r-2Dproject.org&d=CwMF-g&c=WO-RGvefibhHBZq3fL85hQ&r=EwICq0J5pL8CwgEJz8qkmauGonk0XmiLpxcYOEgk2a0&m=6qwSJPZYCpRARRyttQr5sruj40pkZd5pkdTLcINpqdA&s=wGXlFccsYgCySof5W9z4ua94gXNFanuEp8Ud-nuRMmc&e=>
")
Hope that helps!
Cheers,
Matt
~~~~~~~~~~~
Matthew Blackwell
Assistant Professor of Government
Harvard University
url:
http://www.mattblackwell.org
<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mattblackwell.org&d=CwMF-g&c=WO-RGvefibhHBZq3fL85hQ&r=EwICq0J5pL8CwgEJz8qkmauGonk0XmiLpxcYOEgk2a0&m=6qwSJPZYCpRARRyttQr5sruj40pkZd5pkdTLcINpqdA&s=qt90wB5T8Gd9cWPUUTQ06_uufISn2hiXD5zhHKU1nPI&e=>
On Wed, Apr 5, 2017 at 4:22 AM, Nandana Sengupta <nandana(a)uchicago.edu>
wrote:
Hi,
I have been using the development version of Amelia for the past few
months and finding it very useful (Thanks Matt!).
However since the last two days an installation error pops up when trying
to install using the following command:
install.packages("Amelia", repos="http://r.iq.harvard.edu", type =
"source")
The error:
Warning: unable to access index for repository
http://r.iq.harvard.edu/src/contrib:
cannot open URL 'http://r.iq.harvard.edu/src/contrib/PACKAGES'
Warning message:
package ‘Amelia’ is not available (for R version 3.2.3)
Error in library("Amelia") : there is no package called ‘Amelia’
Execution halted
Would be great if the permissions could be restored so we can continue
using the development version.
Thanks a lot,
Nandana Sengupta
University of Chicago, Knowledge Lab
------------------------------
*From:* Matt Blackwell [mblackwell(a)gov.harvard.edu]
*Sent:* Tuesday, September 29, 2015 9:48 PM
*To:* Nandana Sengupta; amelia(a)lists.gking.harvard.edu
*Subject:* Re: [amelia] Error: contrasts can be applied only to factors
with 2 or more levels
Hi Nandana,
This is a bug in the current version of Amelia that occurs when listwise
deletion eliminates all observations. We have a fix for it in the
development version of Amelia. You can find installation instructions for
that version here:
https://github.com/IQSS/Amelia
<https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_IQSS_Amelia&d=CwMF-g&c=WO-RGvefibhHBZq3fL85hQ&r=EwICq0J5pL8CwgEJz8qkmauGonk0XmiLpxcYOEgk2a0&m=afqkPdxqitRUuLONvtiET1toScchF1UuWJPTyJQmeok&s=f4o3_BvcW_H281xmOoAvhha0ixGuHcyVbyvcERoeTkE&e=>
We will be submitting this development version to CRAN in the upcoming
weeks.
Cheers,
Matt
~~~~~~~~~~~
Matthew Blackwell
Assistant Professor of Government
Harvard University
url:
http://www.mattblackwell.org
<https://urldefense.proofpoint.com/v2/url?u=http-3A__www.mattblackwell.org&d=CwMF-g&c=WO-RGvefibhHBZq3fL85hQ&r=EwICq0J5pL8CwgEJz8qkmauGonk0XmiLpxcYOEgk2a0&m=afqkPdxqitRUuLONvtiET1toScchF1UuWJPTyJQmeok&s=FKBFHD6As2B_GzPFwQlAxdfk1JIpQtq22NyUKe7Uy2M&e=>
On Mon, Sep 28, 2015 at 12:43 PM Nandana Sengupta <nandana(a)uchicago.edu>
wrote:
Hi,
I am running Amelia on a cleaned up subset of a single round of the
National Longitudnal Survey of Youth data.
The subset used in the analysis has 64 variables.
I only kept factor variables with 2 to 10 levels in the subset, but when
I run the amelia command I get the following error:
****
Error in `contrasts<-`(`*tmp*`, value = contr.funs[1 + isOF[nn]]) :
contrasts can be applied only to factors with 2 or more levels
****
On the other hand the amelia code runs if I specify "incheck = FALSE" in
the command options.
I am also able to do multiple imputation on this dataset using other R
software but am keen to work with Amelia, since I want to utilize the TSCS
aspect of multiple imputation that the software provides.
Could you shed some light on why I am seeing the error above and also if
the imputation with errors suppressed is reliable?
Thanks,
Nandana Sengupta
University of Chicago, Knowledge Lab
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