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when i run" GSM6506110_RCTD <- run.RCTD(GSM6506110, doublet_mode = 'doublet')" #224

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seekning opened this issue Dec 5, 2024 · 0 comments

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@seekning
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seekning commented Dec 5, 2024

when i run" GSM6506110_RCTD <- run.RCTD(GSM6506110, doublet_mode = 'doublet')"
it appears many times,i reinstalled so many times:
fitBulk: decomposing bulk

chooseSigma: using initial Q_mat with sigma = 1

Error in checkForRemoteErrors(lapply(cl, recvResult)): 4 nodes produced errors; first error: object '.doSnowGlobals' not found
Traceback:

  1. run.RCTD(GSM6506110, doublet_mode = "doublet")
  2. choose_sigma_c(RCTD)
  3. decompose_batch(puck@nUMI[fit_ind], RCTD@cell_type_info$renorm[[1]],
    . beads, RCTD@internal_vars$gene_list_reg, constrain = F, max_cores = RCTD@config$max_cores)
  4. foreach::foreach(i = 1:(dim(beads)[1]), .packages = c("quadprog"),
    . .export = environ) %dopar% {
    . assign("Q_mat", Q_mat, envir = globalenv())
    . assign("X_vals", X_vals, envir = globalenv())
    . assign("K_val", K_val, envir = globalenv())
    . assign("SQ_mat", SQ_mat, envir = globalenv())
    . decompose_full(data.matrix(cell_type_means[gene_list, ] *
    . nUMI[i]), nUMI[i], beads[i, ], constrain = constrain,
    . OLS = OLS, MIN_CHANGE = MIN.CHANGE)
    . }
  5. e$fun(obj, substitute(ex), parent.frame(), e$data)
  6. clusterCall(cl, workerInit, c.expr, exportenv, pkgname, packages,
    . attachExportEnv)
  7. checkForRemoteErrors(lapply(cl, recvResult))
  8. stop(count, " nodes produced errors; first error: ", firstmsg,
    . domain = NA)
image

thank u so much for reply

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