fix installation issue

biodiverse · Feb 27, 2025 · 3d95ea3 · 3d95ea3
1 parent 13ed9e9
commit 3d95ea3
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diff --git a/NAMESPACE b/NAMESPACE
@@ -6,7 +6,6 @@ export(simMsAbund)
 export(simMsNMix)
 export(simDS)
 export(simMsDS)
-export(simDynAbund)
 export(NMix)
 export(spNMix)
 export(msNMix)
@@ -26,8 +25,6 @@ export(waicAbund)
 export(ppcAbund)
 export(svcAbund)
 export(svcMsAbund)
-export(dynAbund)
-export(spDynAbund)
 
 S3method("predict", "NMix")
 S3method("print", "NMix")
@@ -133,18 +130,6 @@ S3method("fitted", "sfMsDS")
 S3method("plot", "sfMsDS")
 S3method("summary", "sfMsDS")
 
-S3method("predict", "dynAbund")
-S3method("print", "dynAbund")
-S3method("fitted", "dynAbund")
-S3method("plot", "dynAbund")
-S3method("summary", "dynAbund")
-
-# S3method("predict", "spDynAbund")
-S3method("print", "spDynAbund")
-S3method("fitted", "spDynAbund")
-# S3method("plot", "spDynAbund")
-S3method("summary", "spDynAbund")
-
 importFrom("stats", "dist", "dnbinom", "rbinom", "rnorm", "rnbinom", "rpois", "coefficients", "glm", "is.empty.model", "model.matrix", "model.response", "terms", "runif", "quantile", "dbinom", "var", "rgamma", "sd", "integrate", "rmultinom")
 importFrom("coda", "mcmc", "gelman.diag", "mcmc.list", "effectiveSize")
 importFrom("abind", "abind")

diff --git a/src/init.cpp b/src/init.cpp
@@ -37,8 +37,6 @@ static const R_CallMethodDef CallEntries[] = {
     {"svcAbundGaussianNNGPPredict", (DL_FUNC) &svcAbundGaussianNNGPPredict, 25},
     {"svcMsAbundGaussianNNGP", (DL_FUNC) &svcMsAbundGaussianNNGP, 50},
     {"svcMsAbundGaussianNNGPPredict", (DL_FUNC) &svcMsAbundGaussianNNGPPredict, 27},
-    {"dynAbund", (DL_FUNC) &dynAbund, 38},
-    {"spDynAbundNNGP", (DL_FUNC) &spDynAbundNNGP, 53},
     {NULL, NULL, 0}
 };
 

diff --git a/src/spAbundance.h b/src/spAbundance.h
@@ -538,34 +538,4 @@ extern "C" {
                                      SEXP nSamples_r, SEXP covModel_r,
                                      SEXP nThreads_r, SEXP verbose_r, SEXP nReport_r,
                                      SEXP z0Samples_r);
-
-  SEXP dynAbund(SEXP y_r, SEXP X_r, SEXP V_r, SEXP XRE_r, SEXP XRandom_r, 
-                SEXP consts_r, SEXP nRELong_r, SEXP beta0Starting_r, 
-                SEXP betaStarting_r, SEXP gammaStarting_r, SEXP kappaStarting_r, 
-                SEXP sigmaEtaStarting_r, SEXP sigmaSqMuStarting_r, 
-                SEXP betaStarStarting_r, SEXP yDatIndx_r, 
-                SEXP betaLevelIndx_r, SEXP betaStarIndx_r, SEXP muBeta0_r, SEXP SigmaBeta0_r, 
-                SEXP muGamma_r, SEXP SigmaGamma_r, SEXP kappaA_r, SEXP kappaB_r, 
-                SEXP sigmaEtaDF_r, SEXP sigmaEtaScale_r, SEXP sigmaSqMuA_r, 
-                SEXP sigmaSqMuB_r, SEXP tuning_r, SEXP nBatch_r, SEXP batchLength_r, 
-                SEXP acceptRate_r, SEXP nThreads_r, SEXP verbose_r, SEXP nReport_r, 
-                SEXP samplesInfo_r, SEXP chainInfo_r, SEXP family_r, SEXP offset_r);
-
-  SEXP spDynAbundNNGP(SEXP y_r, SEXP X_r, SEXP V_r, SEXP coords_r, SEXP XRE_r, SEXP XRandom_r, 
-                      SEXP consts_r, SEXP nRELong_r, SEXP nnIndx_r,
-                      SEXP nnIndxLU_r, SEXP uIndx_r, SEXP uIndxLU_r, SEXP beta0Starting_r, 
-                      SEXP betaStarting_r, SEXP gammaStarting_r, SEXP kappaStarting_r, 
-                      SEXP sigmaEtaStarting_r, SEXP sigmaSqMuStarting_r, 
-                      SEXP betaStarStarting_r, SEXP wStarting_r, SEXP phiStarting_r, 
-                      SEXP sigmaSqStarting_r, SEXP rhoStarting_r, SEXP nuStarting_r,
-                      SEXP yDatIndx_r, SEXP betaLevelIndx_r, 
-                      SEXP betaStarIndx_r, SEXP muBeta0_r, SEXP SigmaBeta0_r, 
-                      SEXP muGamma_r, SEXP SigmaGamma_r, SEXP kappaA_r, SEXP kappaB_r, 
-                      SEXP sigmaEtaDF_r, SEXP sigmaEtaScale_r, SEXP sigmaSqMuA_r, 
-                      SEXP sigmaSqMuB_r, SEXP sigmaSqPriors_r, SEXP phiPriors_r, 
-                      SEXP rhoPriors_r, SEXP nuPriors_r, SEXP tuning_r, 
-                      SEXP covModel_r, SEXP nBatch_r, SEXP batchLength_r, 
-                      SEXP acceptRate_r, SEXP nThreads_r, SEXP verbose_r, SEXP nReport_r, 
-                      SEXP samplesInfo_r, SEXP chainInfo_r, SEXP family_r, SEXP offset_r);
-
 }