CRAN Package Check Results for Maintainer Daniel Turek <danielturek at gmail.com>

CRAN Package Check Results for Maintainer ‘Daniel Turek <danielturek at gmail.com>’

Last updated on 2024-05-02 00:59:20 CEST.

Package	NOTE	OK
basicMCMCplots		12
BayesNSGP		12
MATA		12
nimbleHMC	2	11
nimbleSCR	12

Package MATA

Current CRAN status: OK: 12

Version: 0.2.1
Check: dependencies in R code
Result: NOTE Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used. Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Package nimbleSCR

Current CRAN status: NOTE: 12

Version: 0.2.1
Check: Rd files
Result: NOTE checkRd: (-1) dcatState1Alive1Dead.Rd:58: Lost braces; missing escapes or markup? 58 | If z_{i,t} = 1, individual i can be recruited (transition to state 2) with probability prob1To2_t, so z_{i,t+1} ~ dcat(1- prob1To2_t, prob1To2_t, 0,0 , 0) where prob1To2_t represent the probability of an unborn individual to be recruited. | ^ checkRd: (-1) dcatState1Alive1Dead.Rd:58: Lost braces; missing escapes or markup? 58 | If z_{i,t} = 1, individual i can be recruited (transition to state 2) with probability prob1To2_t, so z_{i,t+1} ~ dcat(1- prob1To2_t, prob1To2_t, 0,0 , 0) where prob1To2_t represent the probability of an unborn individual to be recruited. | ^ checkRd: (-1) dcatState1Alive1Dead.Rd:59: Lost braces; missing escapes or markup? 59 | If z_{i,t} = 2, individual i can die and transition to z_{i,t+1}=3 with probability prob2To3, or survive with probability 1-prob2To3 | ^ checkRd: (-1) dcatState1Alive1Dead.Rd:59: Lost braces; missing escapes or markup? 59 | If z_{i,t} = 2, individual i can die and transition to z_{i,t+1}=3 with probability prob2To3, or survive with probability 1-prob2To3 | ^ checkRd: (-1) dcatState1Alive1Dead.Rd:60: Lost braces; missing escapes or markup? 60 | Individuals in dead states (z_{i,t} = 3 ) remain in that state with probability 1, the absorbing state. | ^ checkRd: (-1) dcatState1Alive1Dead.Rd:32: Lost braces; missing escapes or markup? 32 | \item{x}{Scalar, individual state z_{i,t+1}.} | ^ checkRd: (-1) dcatState1Alive1Dead.Rd:34: Lost braces; missing escapes or markup? 34 | \item{z}{Scalar, initial individual state z_{i,t}.} | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:68: Lost braces; missing escapes or markup? 68 | If z_{i,t} = 1, individual i can be recruited (transition to state 2) with probability prob1To2_t, so z_{i,t+1} ~ dcat(1- prob1To2_t, prob1To2_t, 0,0 , 0) where prob1To2_t represent the probability of an unborn individual to be recruited. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:68: Lost braces; missing escapes or markup? 68 | If z_{i,t} = 1, individual i can be recruited (transition to state 2) with probability prob1To2_t, so z_{i,t+1} ~ dcat(1- prob1To2_t, prob1To2_t, 0,0 , 0) where prob1To2_t represent the probability of an unborn individual to be recruited. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:69: Lost braces; missing escapes or markup? 69 | If z_{i,t} = 2, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=3 with probability prob2To3, or die from another cause with probability prob2To4 z_{i,t+1}=4. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:69: Lost braces; missing escapes or markup? 69 | If z_{i,t} = 2, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=3 with probability prob2To3, or die from another cause with probability prob2To4 z_{i,t+1}=4. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:69: Lost braces; missing escapes or markup? 69 | If z_{i,t} = 2, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=3 with probability prob2To3, or die from another cause with probability prob2To4 z_{i,t+1}=4. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:71: Lost braces; missing escapes or markup? 71 | Individuals in dead states (z_{i,t} = 3 or 4) transition to z_{i,t+1} = 4, the absorbing state, with probability 1. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:71: Lost braces; missing escapes or markup? 71 | Individuals in dead states (z_{i,t} = 3 or 4) transition to z_{i,t+1} = 4, the absorbing state, with probability 1. | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:36: Lost braces; missing escapes or markup? 36 | \item{x}{Scalar, individual state z_{i,t+1}.} | ^ checkRd: (-1) dcatState1Alive2Dead.Rd:38: Lost braces; missing escapes or markup? 38 | \item{z}{Scalar, initial individual state z_{i,t}.} | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:92: Lost braces; missing escapes or markup? 92 | If z_{i,t} = 1, individual i can be recruited (transition to state 2) with probability prob1To2_t, so z_{i,t+1} ~ dcat(1- prob1To2_t, prob1To2_t, 0,0 , 0) where prob1To2_t represent the probability of an unborn individual to be recruited. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:92: Lost braces; missing escapes or markup? 92 | If z_{i,t} = 1, individual i can be recruited (transition to state 2) with probability prob1To2_t, so z_{i,t+1} ~ dcat(1- prob1To2_t, prob1To2_t, 0,0 , 0) where prob1To2_t represent the probability of an unborn individual to be recruited. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:93: Lost braces; missing escapes or markup? 93 | If z_{i,t} = 2, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=4 with probability prob2To4, or die from another cause with probability prob2To5 z_{i,t+1}=5. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:93: Lost braces; missing escapes or markup? 93 | If z_{i,t} = 2, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=4 with probability prob2To4, or die from another cause with probability prob2To5 z_{i,t+1}=5. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:93: Lost braces; missing escapes or markup? 93 | If z_{i,t} = 2, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=4 with probability prob2To4, or die from another cause with probability prob2To5 z_{i,t+1}=5. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:94: Lost braces; missing escapes or markup? 94 | If the individual does not die (1-(prob2To4+prob2To5)), it can either transition to the second state alive (z_{i,t+1}=3) with probability prob2To3 or remain in the first state alive (z_{i,t+1}=2) with probability (1-prob2To3). | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:94: Lost braces; missing escapes or markup? 94 | If the individual does not die (1-(prob2To4+prob2To5)), it can either transition to the second state alive (z_{i,t+1}=3) with probability prob2To3 or remain in the first state alive (z_{i,t+1}=2) with probability (1-prob2To3). | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:95: Lost braces; missing escapes or markup? 95 | If z_{i,t} = 3, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=4 with probability prob3To4, or die from another cause with probability prob3To5 z_{i,t+1}=5. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:95: Lost braces; missing escapes or markup? 95 | If z_{i,t} = 3, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=4 with probability prob3To4, or die from another cause with probability prob3To5 z_{i,t+1}=5. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:95: Lost braces; missing escapes or markup? 95 | If z_{i,t} = 3, individual i can die from one cause of mortality (e.g. culling) and transition to z_{i,t+1}=4 with probability prob3To4, or die from another cause with probability prob3To5 z_{i,t+1}=5. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:97: Lost braces; missing escapes or markup? 97 | Individuals in dead states (z_{i,t} = 4 or 5) transition to z_{i,t+1} = 5, the absorbing state, with probability 1. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:97: Lost braces; missing escapes or markup? 97 | Individuals in dead states (z_{i,t} = 4 or 5) transition to z_{i,t+1} = 5, the absorbing state, with probability 1. | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:48: Lost braces; missing escapes or markup? 48 | \item{x}{Scalar, individual state z_{i,t+1}.} | ^ checkRd: (-1) dcatState2Alive2Dead.Rd:50: Lost braces; missing escapes or markup? 50 | \item{z}{Scalar, initial individual state z_{i,t}.} | ^ checkRd: (-1) dpoisppLocalDetection_normal.Rd:148-152: Lost braces 148 | for(i in 1:nrow(x)){ | ^ checkRd: (-1) sampler_categorical_general.Rd:19: Lost braces 19 | The \code{categorical_general} sampler operates within \code{nimble}'s MCMC engine to perform Gibbs sampling for a single node, which must in essence follow a categorical distribution. However, the prior distribution need not be \code{nimble}'s \code{dcat} distribution, but rather can be any (potentially user-defined) distribution which has the same support as a standard categorical (\code{dcat}) distribution. Specifically: the distribution must define a discrete random variable, which can only attain values from the set {1, 2, 3, ..., \code{numCategories}}. | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-windows-x86_64

Version: 0.2.1
Check: installed package size
Result: NOTE installed size is 6.9Mb sub-directories of 1Mb or more: doc 4.0Mb extdata 1.8Mb Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64, r-release-macos-arm64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64