nimbleSCR
Spatial Capture-Recapture (SCR) Methods Using 'nimble'
v0.2.1
·
Nov 30, 2022
·
GPL-3
Description
Provides utility functions, distributions, and fitting methods for Bayesian Spatial Capture-Recapture (SCR) and Open Population Spatial Capture-Recapture (OPSCR) modelling using the nimble package (de Valpine et al. 2017 <doi:10.1080/10618600.2016.1172487 >). Development of the package was motivated primarily by the need for flexible and efficient analysis of large-scale SCR data (Bischof et al. 2020 <doi:10.1073/pnas.2011383117 >). Computational methods and techniques implemented in nimbleSCR include those discussed in Turek et al. 2021 <doi:10.1002/ecs2.3385>; among others. For a recent application of nimbleSCR, see Milleret et al. (2021) <doi:10.1098/rsbl.2021.0128>.
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CRAN Check Status
13
NOTE
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-windows-x86_64 | NOTE |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | NOTE |
| r-release-linux-x86_64 | NOTE |
| r-release-macos-arm64 | NOTE |
| r-release-macos-x86_64 | NOTE |
| r-release-windows-x86_64 | NOTE |
Check details (15 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
NOTE
r-devel-windows-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-oldrel-macos-arm64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-patched-linux-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-release-linux-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-release-macos-arm64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-release-macos-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
NOTE
r-release-windows-x86_64
Rd files
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 probabil
...[truncated]...
ng 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}}.
| ^
Check History
NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
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) wher
...[truncated]...
^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
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) wher
...[truncated]...
^
NOTE
r-devel-linux-x86_64-fedora-clang
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
NOTE
r-devel-linux-x86_64-fedora-gcc
dependencies in R code
Namespace in Imports field not imported from: ‘methods’ All declared Imports should be used.
NOTE
r-devel-macos-arm64
Rd files
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) wher
...[truncated]...
^
NOTE
r-devel-windows-x86_64
Rd files
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) wher
...[truncated]...
^
NOTE
r-patched-linux-x86_64
Rd files
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) wher
...[truncated]...
^
NOTE
r-release-linux-x86_64
Rd files
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) wher
...[truncated]...
^
NOTE
r-release-macos-arm64
Rd files
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) wher
...[truncated]...
^
NOTE
r-release-macos-x86_64
Rd files
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) wher
...[truncated]...
^
NOTE
r-release-windows-x86_64
Rd files
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) wher
...[truncated]...
^
NOTE
r-oldrel-macos-arm64
installed package size
installed size is 6.9Mb
sub-directories of 1Mb or more:
doc 4.0Mb
extdata 1.8Mb
NOTE
r-oldrel-macos-x86_64
installed package size
installed size is 6.9Mb
sub-directories of 1Mb or more:
doc 4.0Mb
extdata 1.8Mb
NOTE
r-oldrel-windows-x86_64
installed package size
installed size is 6.9Mb
sub-directories of 1Mb or more:
doc 4.0Mb
extdata 1.8Mb
Code
Structure
Lines of code
15,695
Files
124
Compiled share
0%
Has compiled src
No
Language breakdown
R 7,479 (47.7%)Tests 1,045 (6.7%)Docs 4,305 (27.4%)Vignettes 2,866 (18.3%)
API
Exported functions
69
Internal functions
1
Recent export changes
v0.2.1+8 calculateDensity, dcatState1Alive1Dead, dcatState1Alive2Dead +5 more
v0.2.0+7 dbinomLocal_exp, dbinomLocal_normalPlateau, dmultiLocal_normal +4 more −3 dbinom_sparseLocalSCR, getLocalTraps, rbinom_sparseLocalSCR
Testing & CI
Has tests
Yes
Test-to-code ratio
0.14
testthat edition
3
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
88.1%
\dontrun example ratio
9.8%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
No
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
3
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
6
First release
2020-08-20
Latest release
2022-11-30
Avg cadence
140 days
Cold removal rate
100%
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/cran-code-metrics.