R/set_getClpindepX_kin.R

In TIMP: Fitting Separable Nonlinear Models in Spectroscopy and Microscopy

setMethod("getClpindepX", signature(model = "kin"), function(model,
                                                             multimodel, theta, returnX, rawtheta, dind) {
  if (returnX) {
    theta <- getThetaCl(rawtheta, multimodel)[[dind]]
  }
  x <- compModel(
    k = theta@kinpar, kinscal = theta@kinscal,
    x = model@x, irfpar = theta@irfpar, irf = model@irf,
    seqmod = model@seqmod,
    convalg = model@convalg, fullk = model@fullk, kmat = model@kmat,
    jvec = model@jvec, dscalspec = model@dscalspec, drel = theta@drel,
    mirf = model@mirf, measured_irf = model@measured_irf,
    speckin2 = model@speckin2,
    usekin2 = model@usekin2, kinpar2 = theta@kinpar2,
    kin2scal = theta@kin2scal, reftau = model@reftau,
    anispec = model@anispec, anipar = theta@anipar,
    cohcol = model@cohcol, amplitudes = theta@amplitudes,
    streak = model@streak, streakT = model@streakT,
    doublegaus = model@doublegaus, fixedkmat = model@fixedkmat,
    irffun = model@irffun, kinscalspecial = theta@kinscalspecial,
    kinscalspecialspec = model@kinscalspecialspec,
    lightregimespec = model@lightregimespec,
    numericalintegration = model@numericalintegration,
    initialvals = model@initialvals,
    reactantstoichiometrymatrix = model@reactantstoichiometrymatrix,
    stoichiometrymatrix = model@stoichiometrymatrix
  )
  if (returnX) {
    x <- as.vector(x)
  }

  x
})