diff options
Diffstat (limited to 'check.log')
| -rw-r--r-- | check.log | 72 |
1 files changed, 64 insertions, 8 deletions
@@ -24,7 +24,27 @@ Maintainer: ‘Johannes Ranke <jranke@uni-bremen.de>’ * checking for future file timestamps ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK -* checking top-level files ... OK +* checking top-level files ... WARNING +Conversion of ‘README.md’ failed: +[WARNING] This document format requires a nonempty <title> element. + Please specify either ‘title’ or ‘pagetitle’ in the metadata. + Falling back to ‘README’ +Could not fetch https://codecov.io/github/jranke/mkin/branch/master/graphs/badge.svg +HttpExceptionRequest Request { + host = "codecov.io" + port = 443 + secure = True + requestHeaders = [] + path = "/github/jranke/mkin/branch/master/graphs/badge.svg" + queryString = "" + method = "GET" + proxy = Nothing + rawBody = False + redirectCount = 10 + responseTimeout = ResponseTimeoutDefault + requestVersion = HTTP/1.1 +} + ConnectionTimeout * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK @@ -44,7 +64,13 @@ Maintainer: ‘Johannes Ranke <jranke@uni-bremen.de>’ * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK -* checking Rd line widths ... OK +* checking Rd line widths ... NOTE +Rd file 'memkin.Rd': + \examples lines wider than 100 characters: + f_nlme_sfo_sfo_2 <- memkin(f_2[1, ], "pdDiag(parent_0 + log_k_parent_sink + log_k_parent_A1 + log_k_A1_sink ~ 1)") # explicit + f_nlme_sfo_sfo_3 <- memkin(f_2[1, ], "pdDiag(parent_0 + log_k_parent_sink + log_k_parent_A1 ~ 1)") # reduced + +These lines will be truncated in the PDF manual. * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK @@ -56,10 +82,41 @@ Maintainer: ‘Johannes Ranke <jranke@uni-bremen.de>’ * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK -* checking examples ... NOTE -Examples with CPU or elapsed time > 5s - user system elapsed -mkinsub 2.015 4.083 0.703 +* checking examples ... ERROR +Running examples in ‘mkin-Ex.R’ failed +The error most likely occurred in: + +> base::assign(".ptime", proc.time(), pos = "CheckExEnv") +> ### Name: memkin +> ### Title: Estimation of parameter distributions from mmkin row objects +> ### Aliases: memkin +> +> ### ** Examples +> +> sampling_times = c(0, 1, 3, 7, 14, 28, 60, 90, 120) +> m_SFO <- mkinmod(parent = mkinsub("SFO")) +> d_SFO_1 <- mkinpredict(m_SFO, ++ c(k_parent_sink = 0.1), ++ c(parent = 98), sampling_times) +> d_SFO_1_long <- mkin_wide_to_long(d_SFO_1, time = "time") +> d_SFO_2 <- mkinpredict(m_SFO, ++ c(k_parent_sink = 0.05), ++ c(parent = 102), sampling_times) +> d_SFO_2_long <- mkin_wide_to_long(d_SFO_2, time = "time") +> d_SFO_3 <- mkinpredict(m_SFO, ++ c(k_parent_sink = 0.02), ++ c(parent = 103), sampling_times) +> d_SFO_3_long <- mkin_wide_to_long(d_SFO_3, time = "time") +> +> d1 <- add_err(d_SFO_1, function(value) 3, n = 1) +> d2 <- add_err(d_SFO_2, function(value) 2, n = 1) +> d3 <- add_err(d_SFO_3, function(value) 4, n = 1) +> ds <- c(d1 = d1, d2 = d2, d3 = d3) +> +> f <- mmkin("SFO", ds) +Error in .check_ncores(cores) : 8 simultaneous processes spawned +Calls: mmkin -> mclapply -> .check_ncores +Execution halted * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... SKIPPED * checking for unstated dependencies in vignettes ... OK @@ -69,9 +126,8 @@ mkinsub 2.015 4.083 0.703 * checking for detritus in the temp directory ... OK * DONE -Status: 1 NOTE +Status: 1 ERROR, 1 WARNING, 1 NOTE See ‘/home/jranke/git/mkin/mkin.Rcheck/00check.log’ for details. - |