diff --git a/test/rplots/perl_test/bootstrap.t b/test/rplots/perl_test/bootstrap.t deleted file mode 100644 index add39958d..000000000 --- a/test/rplots/perl_test/bootstrap.t +++ /dev/null @@ -1,34 +0,0 @@ -#!/etc/bin/perl - -use strict; -use warnings; -use File::Path 'rmtree'; -use Test::More; -use FindBin qw($Bin); -use lib "$Bin/../.."; #location of includes.pm -use includes; #file with paths to PsN packages and $path variable definition -require File::Copy::Recursive; - -our $toolname = 'bootstrap'; -our $tempdir = create_test_dir('rplots_'.$toolname); - -my $input_dir = $includes::rplots_testfiledir.'/'.$toolname.'/run1'; - -unless (File::Copy::Recursive::dircopy($input_dir, $tempdir)) { - die " Could not copy contents of $input_dir to $tempdir : $!\n"; -} - -chdir($tempdir); - -my $command = get_command('bootstrap') . " run1.mod -dir=rundir -dofv -rplots=2 -summarize"; - -my $rc = system($command); -$rc = $rc >> 8; - -ok ($rc == 0, "bootstrap 1 that should run ok"); -my %pdf_files_pages=($tempdir.'rundir/PsN_bootstrap_plots.pdf' => 7); - -includes::test_pdf_pages(\%pdf_files_pages); - - -done_testing(); diff --git a/test/rplots/test_files/bootstrap/run1/pheno.dta b/test/rplots/test_files/bootstrap/run1/pheno.dta deleted file mode 100644 index 896a0e6fa..000000000 --- a/test/rplots/test_files/bootstrap/run1/pheno.dta +++ /dev/null @@ -1,745 +0,0 @@ -ID TIME AMT WGT APGR DV FA1 FA2 - 1 0. 25.0 1.4 7 0 1 1 - 1 2.0 0 1.4 7 17.3 0 0 - 1 12.5 3.5 1.4 7 0 1 1 - 1 24.5 3.5 1.4 7 0 1 1 - 1 37.0 3.5 1.4 7 0 1 1 - 1 48.0 3.5 1.4 7 0 1 1 - 1 60.5 3.5 1.4 7 0 1 1 - 1 72.5 3.5 1.4 7 0 1 1 - 1 85.3 3.5 1.4 7 0 1 1 - 1 96.5 3.5 1.4 7 0 1 1 - 1 108.5 3.5 1.4 7 0 1 1 - 1 112.5 0 1.4 7 31.0 0 0 - 2 0. 15.0 1.5 9 0 1 1 - 2 2.0 0 1.5 9 9.7 0 0 - 2 4.0 3.8 1.5 9 0 1 1 - 2 16.0 3.8 1.5 9 0 1 1 - 2 27.8 3.8 1.5 9 0 1 1 - 2 40.0 3.8 1.5 9 0 1 1 - 2 52.0 3.8 1.5 9 0 1 1 - 2 63.5 0 1.5 9 24.6 0 0 - 2 64.0 3.8 1.5 9 0 1 1 - 2 76.0 3.8 1.5 9 0 1 1 - 2 88.0 3.8 1.5 9 0 1 1 - 2 100.0 3.8 1.5 9 0 1 1 - 2 112.0 3.8 1.5 9 0 1 1 - 2 124.0 3.8 1.5 9 0 1 1 - 2 135.5 0 1.5 9 33.0 0 0 - 3 0. 30.0 1.5 6 0 1 1 - 3 1.5 0 1.5 6 18.0 0 0 - 3 11.5 3.7 1.5 6 0 1 1 - 3 23.5 3.7 1.5 6 0 1 1 - 3 35.5 3.7 1.5 6 0 1 1 - 3 47.5 3.7 1.5 6 0 1 1 - 3 59.3 3.7 1.5 6 0 1 1 - 3 73.0 3.7 1.5 6 0 1 1 - 3 83.5 0 1.5 6 23.8 0 0 - 3 84.0 3.7 1.5 6 0 1 1 - 3 96.5 3.7 1.5 6 0 1 1 - 3 108.5 3.7 1.5 6 0 1 1 - 3 120.0 3.7 1.5 6 0 1 1 - 3 132.0 3.7 1.5 6 0 1 1 - 3 134.3 0 1.5 6 24.3 0 0 - 4 0. 18.6 0.9 6 0 1 1 - 4 1.8 0 0.9 6 20.8 0 0 - 4 12.0 2.3 0.9 6 0 1 1 - 4 24.3 2.3 0.9 6 0 1 1 - 4 35.8 2.3 0.9 6 0 1 1 - 4 48.1 2.3 0.9 6 0 1 1 - 4 59.3 0 0.9 6 23.9 0 0 - 4 59.8 2.3 0.9 6 0 1 1 - 4 71.8 2.3 0.9 6 0 1 1 - 4 83.8 2.3 0.9 6 0 1 1 - 4 95.8 2.3 0.9 6 0 1 1 - 4 107.8 2.3 0.9 6 0 1 1 - 4 119.8 2.3 0.9 6 0 1 1 - 4 130.8 0 0.9 6 31.7 0 0 - 5 0. 27.0 1.4 7 0 1 1 - 5 2.0 0 1.4 7 14.2 0 0 - 5 12.0 3.4 1.4 7 0 1 1 - 5 24.0 3.4 1.4 7 0 1 1 - 5 36.0 3.4 1.4 7 0 1 1 - 5 48.0 3.4 1.4 7 0 1 1 - 5 59.5 0 1.4 7 18.2 0 0 - 5 60.0 3.4 1.4 7 0 1 1 - 5 72.0 3.4 1.4 7 0 1 1 - 5 84.0 3.4 1.4 7 0 1 1 - 5 96.0 3.4 1.4 7 0 1 1 - 5 108.0 3.4 1.4 7 0 1 1 - 5 120.0 3.4 1.4 7 0 1 1 - 5 132.0 0 1.4 7 20.3 0 0 - 6 0. 24.0 1.2 5 0 1 1 - 6 1.8 0 1.2 5 19.0 0 0 - 6 11.8 3.0 1.2 5 0 1 1 - 6 23.8 3.0 1.2 5 0 1 1 - 6 35.8 3.0 1.2 5 0 1 1 - 6 47.8 3.0 1.2 5 0 1 1 - 6 59.3 0 1.2 5 17.3 0 0 - 6 59.8 3.0 1.2 5 0 1 1 - 6 71.8 3.0 1.2 5 0 1 1 - 6 83.8 3.0 1.2 5 0 1 1 - 6 95.8 3.0 1.2 5 0 1 1 - 6 107.8 3.0 1.2 5 0 1 1 - 6 120.1 3.0 1.2 5 0 1 1 - 6 131.8 3.0 1.2 5 0 1 1 - 6 142.8 0 1.2 5 32.5 0 0 - 7 0. 19.0 1.0 5 0 1 1 - 7 2.0 0 1.0 5 17.9 0 0 - 7 11.3 2.4 1.0 5 0 1 1 - 7 23.3 2.4 1.0 5 0 1 1 - 7 36.5 2.4 1.0 5 0 1 1 - 7 48.2 2.4 1.0 5 0 1 1 - 7 60.3 2.4 1.0 5 0 1 1 - 7 73.8 0 1.0 5 23.4 0 0 - 7 75.8 2.4 1.0 5 0 1 1 - 7 84.3 2.4 1.0 5 0 1 1 - 7 96.3 2.4 1.0 5 0 1 1 - 7 108.3 2.4 1.0 5 0 1 1 - 7 120.3 2.4 1.0 5 0 1 1 - 7 132.3 2.4 1.0 5 0 1 1 - 7 144.5 2.4 1.0 5 0 1 1 - 7 165.3 0 1.0 5 25.8 0 0 - 8 0. 24.0 1.2 7 0 1 1 - 8 1.7 0 1.2 7 25.8 0 0 - 8 11.8 3.0 1.2 7 0 1 1 - 8 23.7 3.0 1.2 7 0 1 1 - 8 35.7 3.0 1.2 7 0 1 1 - 8 47.7 3.0 1.2 7 0 1 1 - 8 59.7 3.0 1.2 7 0 1 1 - 8 71.7 3.0 1.2 7 0 1 1 - 8 73.7 0 1.2 7 34.2 0 0 - 8 83.7 3.0 1.2 7 0 1 1 - 8 95.7 3.0 1.2 7 0 1 1 - 8 107.7 3.0 1.2 7 0 1 1 - 8 119.7 3.0 1.2 7 0 1 1 - 8 131.7 3.0 1.2 7 0 1 1 - 8 143.7 3.0 1.2 7 0 1 1 - 8 146.7 0 1.2 7 36.1 0 0 - 9 0. 27.0 1.4 8 0 1 1 - 9 1.1 0 1.4 8 22.1 0 0 - 9 11.1 3.2 1.4 8 0 1 1 - 9 22.3 3.2 1.4 8 0 1 1 - 9 34.6 3.2 1.4 8 0 1 1 - 9 46.6 3.2 1.4 8 0 1 1 - 9 58.7 3.2 1.4 8 0 1 1 - 9 70.9 3.2 1.4 8 0 1 1 - 9 82.7 0 1.4 8 29.2 0 0 - 9 83.2 3.2 1.4 8 0 1 1 - 9 94.6 3.2 1.4 8 0 1 1 - 9 106.6 3.2 1.4 8 0 1 1 - 9 118.6 3.2 1.4 8 0 1 1 - 9 130.6 3.2 1.4 8 0 1 1 - 9 142.1 0 1.4 8 34.2 0 0 - 9 142.6 3.2 1.4 8 0 1 1 - 9 312.6 0 1.4 8 19.6 0 0 - 10 0. 27.0 1.4 7 0 1 1 - 10 1.2 0 1.4 7 19.9 0 0 - 10 11.2 3.5 1.4 7 0 1 1 - 10 23.2 3.5 1.4 7 0 1 1 - 10 35.3 3.5 1.4 7 0 1 1 - 10 47.2 3.5 1.4 7 0 1 1 - 10 59.2 3.5 1.4 7 0 1 1 - 10 70.7 0 1.4 7 23.4 0 0 - 10 71.2 3.5 1.4 7 0 1 1 - 10 83.2 3.5 1.4 7 0 1 1 - 10 95.2 3.5 1.4 7 0 1 1 - 10 107.2 3.5 1.4 7 0 1 1 - 10 119.2 3.5 1.4 7 0 1 1 - 10 131.2 3.5 1.4 7 0 1 1 - 10 142.2 0 1.4 7 30.9 0 0 - 11 0. 24.0 1.2 7 0 1 1 - 11 11.5 24.0 1.2 7 0 1 1 - 11 23.5 3.0 1.2 7 0 1 1 - 11 35.5 3.0 1.2 7 0 1 1 - 11 47.5 3.0 1.2 7 0 1 1 - 11 57.5 0 1.2 7 24.3 0 0 - 12 0. 26.0 1.3 6 0 1 1 - 12 2.0 0 1.3 6 17.0 0 0 - 12 12.0 3.3 1.3 6 0 1 1 - 12 13.0 5.0 1.3 6 0 1 1 - 12 24.5 3.3 1.3 6 0 1 1 - 12 36.0 3.3 1.3 6 0 1 1 - 12 48.5 3.3 1.3 6 0 1 1 - 12 60.0 3.3 1.3 6 0 1 1 - 12 72.0 3.3 1.3 6 0 1 1 - 12 84.0 3.3 1.3 6 0 1 1 - 12 96.0 3.3 1.3 6 0 1 1 - 12 108.0 3.3 1.3 6 0 1 1 - 12 120.0 3.3 1.3 6 0 1 1 - 12 132.2 0 1.3 6 34.1 0 0 - 12 132.5 3.3 1.3 6 0 1 1 - 12 302.5 0 1.3 6 16.0 0 0 - 13 0. 11.0 1.1 6 0 1 1 - 13 12.0 11.0 1.1 6 0 1 1 - 13 25.0 2.8 1.1 6 0 1 1 - 13 36.5 0 1.1 6 24.1 0 0 - 13 37.0 2.8 1.1 6 0 1 1 - 13 49.0 2.8 1.1 6 0 1 1 - 13 61.0 2.8 1.1 6 0 1 1 - 13 74.0 2.8 1.1 6 0 1 1 - 13 85.0 2.8 1.1 6 0 1 1 - 13 98.0 2.8 1.1 6 0 1 1 - 13 110.0 2.8 1.1 6 0 1 1 - 13 121.3 2.8 1.1 6 0 1 1 - 13 134.0 2.8 1.1 6 0 1 1 - 13 145.0 2.8 1.1 6 0 1 1 - 13 157.0 2.8 1.1 6 0 1 1 - 13 169.0 0 1.1 6 38.2 0 0 - 14 0. 22.0 1.1 7 0 1 1 - 14 2.3 0 1.1 7 25.6 0 0 - 14 11.8 2.8 1.1 7 0 1 1 - 14 23.8 2.8 1.1 7 0 1 1 - 14 35.8 2.8 1.1 7 0 1 1 - 14 47.8 2.8 1.1 7 0 1 1 - 14 59.3 0 1.1 7 25.6 0 0 - 14 59.8 2.8 1.1 7 0 1 1 - 14 71.8 2.8 1.1 7 0 1 1 - 14 83.8 2.8 1.1 7 0 1 1 - 14 95.8 2.8 1.1 7 0 1 1 - 14 107.3 2.8 1.1 7 0 1 1 - 14 119.8 2.8 1.1 7 0 1 1 - 14 131.5 0 1.1 7 25.7 0 0 - 14 131.8 2.8 1.1 7 0 1 1 - 14 143.8 2.8 1.1 7 0 1 1 - 14 303.3 0 1.1 7 14.3 0 0 - 15 0. 26.0 1.3 7 0 1 1 - 15 12.2 3.3 1.3 7 0 1 1 - 15 22.2 0 1.3 7 19.3 0 0 - 15 24.2 3.3 1.3 7 0 1 1 - 15 36.2 3.3 1.3 7 0 1 1 - 15 47.8 3.3 1.3 7 0 1 1 - 15 70.2 3.3 1.3 7 0 1 1 - 15 85.6 3.3 1.3 7 0 1 1 - 15 96.2 3.3 1.3 7 0 1 1 - 15 108.2 3.3 1.3 7 0 1 1 - 15 120.2 3.3 1.3 7 0 1 1 - 15 132.2 3.3 1.3 7 0 1 1 - 15 143.7 3.3 1.3 7 0 1 1 - 15 145.7 0 1.3 7 29.7 0 0 - 16 0. 12.0 1.2 9 0 1 1 - 16 9.0 12.0 1.2 9 0 1 1 - 16 12.0 0 1.2 9 17.3 0 0 - 16 15.4 4.0 1.2 9 0 1 1 - 16 21.3 3.0 1.2 9 0 1 1 - 16 33.0 3.0 1.2 9 0 1 1 - 16 45.0 3.0 1.2 9 0 1 1 - 16 56.0 0 1.2 9 26.8 0 0 - 16 57.0 3.0 1.2 9 0 1 1 - 16 69.0 3.0 1.2 9 0 1 1 - 16 81.0 3.0 1.2 9 0 1 1 - 16 93.0 3.0 1.2 9 0 1 1 - 16 105.0 3.0 1.2 9 0 1 1 - 16 117.0 3.0 1.2 9 0 1 1 - 16 129.5 3.0 1.2 9 0 1 1 - 16 141.5 3.0 1.2 9 0 1 1 - 16 152.8 3.0 1.2 9 0 1 1 - 16 153.5 0 1.2 9 38.4 0 0 - 17 0. 22.0 1.1 5 0 1 1 - 17 12.0 2.8 1.1 5 0 1 1 - 17 24.0 2.8 1.1 5 0 1 1 - 17 32.0 0 1.1 5 21.3 0 0 - 17 35.5 2.8 1.1 5 0 1 1 - 17 48.0 2.8 1.1 5 0 1 1 - 17 60.0 2.8 1.1 5 0 1 1 - 17 72.0 0 1.1 5 28.8 0 0 - 17 72.3 2.8 1.1 5 0 1 1 - 17 84.3 2.8 1.1 5 0 1 1 - 17 95.8 2.8 1.1 5 0 1 1 - 17 108.0 2.8 1.1 5 0 1 1 - 17 120.0 2.8 1.1 5 0 1 1 - 17 132.0 2.8 1.1 5 0 1 1 - 17 144.0 2.8 1.1 5 0 1 1 - 17 155.0 0 1.1 5 34.9 0 0 - 18 0. 20.0 1.0 5 0 1 1 - 18 2.8 0 1.0 5 21.9 0 0 - 18 11.8 20.0 1.0 5 0 1 1 - 18 23.8 2.5 1.0 5 0 1 1 - 18 35.8 2.5 1.0 5 0 1 1 - 18 48.1 2.5 1.0 5 0 1 1 - 18 59.3 2.5 1.0 5 0 1 1 - 18 71.3 0 1.0 5 25.9 0 0 - 18 71.8 2.5 1.0 5 0 1 1 - 18 82.8 2.5 1.0 5 0 1 1 - 18 95.8 2.5 1.0 5 0 1 1 - 18 107.8 2.5 1.0 5 0 1 1 - 18 119.8 2.5 1.0 5 0 1 1 - 18 131.8 2.5 1.0 5 0 1 1 - 18 143.8 0 1.0 5 28.9 0 0 - 18 389.8 0 1.0 5 6.7 0 0 - 19 0. 10.0 1.0 1 0 1 1 - 19 4.0 10.0 1.0 1 0 1 1 - 19 9.5 0 1.0 1 18.9 0 0 - 19 13.0 2.5 1.0 1 0 1 1 - 19 24.0 2.5 1.0 1 0 1 1 - 19 35.9 3.0 1.0 1 0 1 1 - 19 48.0 3.0 1.0 1 0 1 1 - 19 59.9 3.0 1.0 1 0 1 1 - 19 72.0 3.0 1.0 1 0 1 1 - 19 83.5 0 1.0 1 23.2 0 0 - 19 84.3 3.0 1.0 1 0 1 1 - 19 96.0 3.0 1.0 1 0 1 1 - 19 108.3 3.0 1.0 1 0 1 1 - 19 120.0 3.0 1.0 1 0 1 1 - 19 132.0 3.0 1.0 1 0 1 1 - 19 144.0 3.0 1.0 1 0 1 1 - 19 158.0 0 1.0 1 32.9 0 0 - 20 0. 24.0 1.2 6 0 1 1 - 20 2.0 0 1.2 6 23.1 0 0 - 20 12.0 3.0 1.2 6 0 1 1 - 20 24.0 3.0 1.2 6 0 1 1 - 20 36.0 3.0 1.2 6 0 1 1 - 20 48.0 3.0 1.2 6 0 1 1 - 20 60.5 3.0 1.2 6 0 1 1 - 20 62.5 0 1.2 6 27.8 0 0 - 20 72.0 3.0 1.2 6 0 1 1 - 20 84.0 3.0 1.2 6 0 1 1 - 20 95.5 3.0 1.2 6 0 1 1 - 20 108.0 3.0 1.2 6 0 1 1 - 20 120.0 3.0 1.2 6 0 1 1 - 20 132.0 3.0 1.2 6 0 1 1 - 20 134.0 0 1.2 6 34.0 0 0 - 21 0. 17.5 1.8 7 0 1 1 - 21 4.2 17.5 1.8 7 0 1 1 - 21 8.3 0 1.8 7 21.1 0 0 - 21 15.8 4.5 1.8 7 0 1 1 - 21 28.0 4.5 1.8 7 0 1 1 - 21 39.8 4.5 1.8 7 0 1 1 - 21 51.8 4.5 1.8 7 0 1 1 - 21 63.8 4.5 1.8 7 0 1 1 - 21 76.8 4.5 1.8 7 0 1 1 - 21 88.3 4.5 1.8 7 0 1 1 - 21 100.8 4.5 1.8 7 0 1 1 - 21 112.3 0 1.8 7 29.1 0 0 - 21 112.8 4.5 1.8 7 0 1 1 - 21 124.3 4.5 1.8 7 0 1 1 - 21 136.3 4.5 1.8 7 0 1 1 - 21 148.8 4.5 1.8 7 0 1 1 - 21 260.6 0 1.8 7 21.1 0 0 - 22 0. 15.0 1.5 8 0 1 1 - 22 4.0 15.0 1.5 8 0 1 1 - 22 6.0 0 1.5 8 21.8 0 0 - 22 16.0 4.0 1.5 8 0 1 1 - 22 28.0 4.0 1.5 8 0 1 1 - 22 40.0 4.0 1.5 8 0 1 1 - 22 51.0 0 1.5 8 25.0 0 0 - 23 0. 60.0 3.1 3 0 1 1 - 23 11.0 0 3.1 3 22.3 0 0 - 23 11.5 7.5 3.1 3 0 1 1 - 23 24.0 7.5 3.1 3 0 1 1 - 23 35.5 7.5 3.1 3 0 1 1 - 23 47.0 7.5 3.1 3 0 1 1 - 23 59.5 7.5 3.1 3 0 1 1 - 23 70.5 0 3.1 3 26.6 0 0 - 23 71.5 7.5 3.1 3 0 1 1 - 23 84.0 7.5 3.1 3 0 1 1 - 23 95.8 7.5 3.1 3 0 1 1 - 23 107.5 7.5 3.1 3 0 1 1 - 23 120.0 7.5 3.1 3 0 1 1 - 23 132.5 7.5 3.1 3 0 1 1 - 23 140.0 0 3.1 3 27.7 0 0 - 24 0. 63.0 3.2 2 0 1 1 - 24 0.7 63.0 3.2 2 0 1 1 - 24 2.0 0 3.2 2 37.3 0 0 - 24 6.5 32.0 3.2 2 0 1 1 - 24 16.0 10.0 3.2 2 0 1 1 - 24 28.0 10.0 3.2 2 0 1 1 - 24 40.0 10.0 3.2 2 0 1 1 - 24 52.7 10.0 3.2 2 0 1 1 - 24 64.0 10.0 3.2 2 0 1 1 - 24 76.0 10.0 3.2 2 0 1 1 - 24 79.0 0 3.2 2 41.7 0 0 - 24 88.0 10.0 3.2 2 0 1 1 - 24 100.0 10.0 3.2 2 0 1 1 - 24 112.0 10.0 3.2 2 0 1 1 - 24 124.0 10.0 3.2 2 0 1 1 - 24 136.0 10.0 3.2 2 0 1 1 - 24 147.5 10.0 3.2 2 0 1 1 - 24 176.0 0 3.2 2 38.1 0 0 - 25 0. 15.0 0.7 1 0 1 1 - 25 2.0 0 0.7 1 13.7 0 0 - 25 12.0 1.9 0.7 1 0 1 1 - 25 18.5 7.5 0.7 1 0 1 1 - 25 21.0 0 0.7 1 21.8 0 0 - 25 23.7 1.5 0.7 1 0 1 1 - 25 35.8 1.5 0.7 1 0 1 1 - 25 48.3 1.5 0.7 1 0 1 1 - 25 60.5 1.5 0.7 1 0 1 1 - 25 61.5 0 0.7 1 16.7 0 0 - 25 70.7 5.0 0.7 1 0 1 1 - 25 72.0 2.0 0.7 1 0 1 1 - 25 84.0 2.0 0.7 1 0 1 1 - 25 90.5 0 0.7 1 29.8 0 0 - 25 95.8 2.0 0.7 1 0 1 1 - 25 108.0 2.0 0.7 1 0 1 1 - 25 120.0 2.0 0.7 1 0 1 1 - 25 121.5 0 0.7 1 38.0 0 0 - 25 132.0 2.0 0.7 1 0 1 1 - 25 138.0 0 0.7 1 31.3 0 0 - 26 0. 70.0 3.5 9 0 1 1 - 26 11.5 9.0 3.5 9 0 1 1 - 26 23.5 9.0 3.5 9 0 1 1 - 26 35.5 9.0 3.5 9 0 1 1 - 26 37.5 0 3.5 9 28.6 0 0 - 26 47.5 9.0 3.5 9 0 1 1 - 26 59.5 9.0 3.5 9 0 1 1 - 26 71.5 9.0 3.5 9 0 1 1 - 26 83.5 9.0 3.5 9 0 1 1 - 26 95.5 9.0 3.5 9 0 1 1 - 26 107.5 9.0 3.5 9 0 1 1 - 26 110.5 0 3.5 9 34.9 0 0 - 27 0. 35.0 1.9 5 0 1 1 - 27 1.7 0 1.9 5 26.4 0 0 - 27 12.4 5.0 1.9 5 0 1 1 - 27 23.7 5.0 1.9 5 0 1 1 - 27 35.2 5.0 1.9 5 0 1 1 - 27 48.0 5.0 1.9 5 0 1 1 - 27 59.7 5.0 1.9 5 0 1 1 - 27 71.7 5.0 1.9 5 0 1 1 - 27 83.2 0 1.9 5 33.3 0 0 - 28 0. 60.0 3.2 9 0 1 1 - 28 2.0 0 3.2 9 16.9 0 0 - 29 0. 20.0 1.0 7 0 1 1 - 29 12.0 2.5 1.0 7 0 1 1 - 29 23.5 2.5 1.0 7 0 1 1 - 29 36.5 2.5 1.0 7 0 1 1 - 29 47.5 0 1.0 7 22.9 0 0 - 30 0. 18.0 1.8 8 0 1 1 - 30 2.2 18.0 1.8 8 0 1 1 - 30 6.3 0 1.8 8 17.9 0 0 - 30 15.3 3.5 1.8 8 0 1 1 - 30 26.3 3.5 1.8 8 0 1 1 - 30 38.8 3.5 1.8 8 0 1 1 - 30 50.8 3.5 1.8 8 0 1 1 - 30 62.8 3.5 1.8 8 0 1 1 - 30 75.3 3.5 1.8 8 0 1 1 - 30 87.3 3.5 1.8 8 0 1 1 - 30 98.8 3.5 1.8 8 0 1 1 - 30 110.8 3.5 1.8 8 0 1 1 - 30 123.3 3.5 1.8 8 0 1 1 - 30 134.8 3.5 1.8 8 0 1 1 - 30 226.3 0 1.8 8 16.5 0 0 - 31 0. 30.0 1.4 8 0 1 1 - 31 1.0 0 1.4 8 25.3 0 0 - 32 0. 70.0 3.6 9 0 1 1 - 32 6.5 0 3.6 9 12.7 0 0 - 32 12.0 7.5 3.6 9 0 1 1 - 32 21.6 35.0 3.6 9 0 1 1 - 32 24.0 0 3.6 9 22.1 0 0 - 32 24.3 7.5 3.6 9 0 1 1 - 32 35.6 7.5 3.6 9 0 1 1 - 32 48.0 7.5 3.6 9 0 1 1 - 32 61.0 7.5 3.6 9 0 1 1 - 32 72.0 7.5 3.6 9 0 1 1 - 32 83.5 0 3.6 9 21.2 0 0 - 33 0. 17.0 1.7 8 0 1 1 - 33 4.0 17.0 1.7 8 0 1 1 - 33 5.5 0 1.7 8 21.2 0 0 - 33 16.0 4.3 1.7 8 0 1 1 - 33 28.0 4.3 1.7 8 0 1 1 - 33 40.3 4.3 1.7 8 0 1 1 - 33 52.0 4.3 1.7 8 0 1 1 - 33 65.0 0 1.7 8 27.4 0 0 - 34 0. 34.0 1.7 4 0 1 1 - 34 1.8 0 1.7 4 22.1 0 0 - 34 11.8 4.3 1.7 4 0 1 1 - 34 23.8 4.3 1.7 4 0 1 1 - 34 47.8 4.3 1.7 4 0 1 1 - 34 59.8 4.0 1.7 4 0 1 1 - 34 71.8 4.0 1.7 4 0 1 1 - 34 83.8 4.0 1.7 4 0 1 1 - 34 86.8 0 1.7 4 28.7 0 0 - 35 0. 25.0 2.5 5 0 1 1 - 35 3.5 25.0 2.5 5 0 1 1 - 35 15.0 6.0 2.5 5 0 1 1 - 35 19.0 0 2.5 5 25.2 0 0 - 35 27.0 6.0 2.5 5 0 1 1 - 35 39.0 6.0 2.5 5 0 1 1 - 35 51.0 6.0 2.5 5 0 1 1 - 35 63.0 6.0 2.5 5 0 1 1 - 35 75.0 6.0 2.5 5 0 1 1 - 35 87.0 6.0 2.5 5 0 1 1 - 35 99.0 0 2.5 5 38.0 0 0 - 36 0. 30.0 1.5 5 0 1 1 - 36 2.0 0 1.5 5 23.2 0 0 - 36 12.0 4.0 1.5 5 0 1 1 - 36 23.5 4.0 1.5 5 0 1 1 - 36 36.0 4.0 1.5 5 0 1 1 - 36 48.0 4.0 1.5 5 0 1 1 - 36 60.0 4.0 1.5 5 0 1 1 - 36 72.0 4.0 1.5 5 0 1 1 - 36 85.0 4.0 1.5 5 0 1 1 - 36 96.0 4.0 1.5 5 0 1 1 - 36 108.0 4.0 1.5 5 0 1 1 - 36 120.0 4.0 1.5 5 0 1 1 - 36 132.0 4.0 1.5 5 0 1 1 - 36 134.0 0 1.5 5 28.9 0 0 - 36 304.0 0 1.5 5 12.7 0 0 - 37 0. 24.0 1.2 9 0 1 1 - 37 2.3 0 1.2 9 19.5 0 0 - 37 11.8 3.0 1.2 9 0 1 1 - 37 24.3 3.0 1.2 9 0 1 1 - 37 36.3 3.0 1.2 9 0 1 1 - 37 48.3 3.0 1.2 9 0 1 1 - 37 60.3 3.0 1.2 9 0 1 1 - 37 72.8 3.0 1.2 9 0 1 1 - 37 84.3 3.0 1.2 9 0 1 1 - 37 96.3 3.0 1.2 9 0 1 1 - 37 108.3 3.0 1.2 9 0 1 1 - 37 119.8 3.0 1.2 9 0 1 1 - 37 132.3 3.0 1.2 9 0 1 1 - 37 144.3 3.0 1.2 9 0 1 1 - 37 156.3 3.0 1.2 9 0 1 1 - 37 159.8 0 1.2 9 33.4 0 0 - 38 0. 26.0 1.3 8 0 1 1 - 38 1.8 0 1.3 8 17.9 0 0 - 38 11.6 3.0 1.3 8 0 1 1 - 38 23.3 3.0 1.3 8 0 1 1 - 38 35.3 3.0 1.3 8 0 1 1 - 38 47.3 3.0 1.3 8 0 1 1 - 38 59.3 3.0 1.3 8 0 1 1 - 38 71.3 3.0 1.3 8 0 1 1 - 38 83.3 3.0 1.3 8 0 1 1 - 38 95.3 3.0 1.3 8 0 1 1 - 38 107.3 3.0 1.3 8 0 1 1 - 38 118.8 0 1.3 8 21.6 0 0 - 38 119.3 3.0 1.3 8 0 1 1 - 38 131.3 3.0 1.3 8 0 1 1 - 38 143.3 3.0 1.3 8 0 1 1 - 38 155.3 3.0 1.3 8 0 1 1 - 38 167.3 3.0 1.3 8 0 1 1 - 38 183.3 0 1.3 8 30.5 0 0 - 38 310.3 0 1.3 8 13.0 0 0 - 39 0. 56.0 1.9 10 0 1 1 - 39 1.4 0 1.9 10 30.0 0 0 - 39 12.7 5.0 1.9 10 0 1 1 - 39 24.4 5.0 1.9 10 0 1 1 - 39 36.4 5.0 1.9 10 0 1 1 - 39 48.4 5.0 1.9 10 0 1 1 - 39 60.4 5.0 1.9 10 0 1 1 - 39 72.3 5.0 1.9 10 0 1 1 - 39 84.8 5.0 1.9 10 0 1 1 - 39 96.4 5.0 1.9 10 0 1 1 - 39 108.4 5.0 1.9 10 0 1 1 - 39 110.4 0 1.9 10 37.7 0 0 - 39 120.4 5.0 1.9 10 0 1 1 - 39 132.4 5.0 1.9 10 0 1 1 - 39 260.4 0 1.9 10 18.4 0 0 - 40 0. 19.0 1.1 3 0 1 1 - 40 1.0 0 1.1 3 13.7 0 0 - 40 2.0 3.0 1.1 3 0 1 1 - 40 3.8 12.0 1.1 3 0 1 1 - 40 4.0 0 1.1 3 25.0 0 0 - 41 0. 34.0 1.7 7 0 1 1 - 41 2.0 0 1.7 7 18.6 0 0 - 41 7.3 4.0 1.7 7 0 1 1 - 41 12.0 4.0 1.7 7 0 1 1 - 41 24.8 4.0 1.7 7 0 1 1 - 41 33.9 4.0 1.7 7 0 1 1 - 41 36.0 0 1.7 7 21.0 0 0 - 41 48.3 4.0 1.7 7 0 1 1 - 41 58.7 4.0 1.7 7 0 1 1 - 41 59.0 0 1.7 7 26.4 0 0 - 42 0. 28.0 2.8 9 0 1 1 - 42 12.0 28.0 2.8 9 0 1 1 - 42 14.0 0 2.8 9 13.3 0 0 - 42 23.7 7.0 2.8 9 0 1 1 - 42 36.2 7.0 2.8 9 0 1 1 - 42 47.8 7.0 2.8 9 0 1 1 - 42 60.0 7.0 2.8 9 0 1 1 - 42 72.0 7.0 2.8 9 0 1 1 - 42 84.0 7.0 2.8 9 0 1 1 - 42 95.5 0 2.8 9 13.9 0 0 - 43 0. 18.0 0.9 1 0 1 1 - 43 2.0 0 0.9 1 22.3 0 0 - 44 0. 14.0 1.4 7 0 1 1 - 44 5.0 14.0 1.4 7 0 1 1 - 44 11.0 0 1.4 7 17.8 0 0 - 44 17.0 3.5 1.4 7 0 1 1 - 44 29.0 3.5 1.4 7 0 1 1 - 44 41.0 3.5 1.4 7 0 1 1 - 44 54.5 3.5 1.4 7 0 1 1 - 44 65.0 3.5 1.4 7 0 1 1 - 44 77.5 3.5 1.4 7 0 1 1 - 44 89.0 3.5 1.4 7 0 1 1 - 44 101.0 3.5 1.4 7 0 1 1 - 44 113.0 3.5 1.4 7 0 1 1 - 44 125.0 0 1.4 7 27.6 0 0 - 44 125.5 3.5 1.4 7 0 1 1 - 44 292.0 0 1.4 7 13.5 0 0 - 45 0. 16.0 0.8 2 0 1 1 - 45 4.5 0 0.8 2 16.6 0 0 - 45 12.5 2.0 0.8 2 0 1 1 - 45 24.5 2.0 0.8 2 0 1 1 - 45 36.5 2.0 0.8 2 0 1 1 - 45 48.3 0 0.8 2 20.2 0 0 - 45 48.5 2.0 0.8 2 0 1 1 - 45 60.5 2.0 0.8 2 0 1 1 - 45 72.5 2.0 0.8 2 0 1 1 - 45 84.5 2.0 0.8 2 0 1 1 - 45 96.5 2.0 0.8 2 0 1 1 - 45 106.5 0 0.8 2 24.5 0 0 - 46 0. 11.0 1.1 8 0 1 1 - 46 0.5 11.0 1.1 8 0 1 1 - 46 2.0 0 1.1 8 20.1 0 0 - 47 0. 40.0 2.6 9 0 1 1 - 47 9.3 6.7 2.6 9 0 1 1 - 47 19.3 6.7 2.6 9 0 1 1 - 47 33.3 6.7 2.6 9 0 1 1 - 47 36.3 6.7 2.6 9 0 1 1 - 47 38.3 0 2.6 9 25.1 0 0 - 48 0. 14.0 0.7 8 0 1 1 - 48 2.8 0 0.7 8 12.9 0 0 - 48 11.3 1.7 0.7 8 0 1 1 - 48 23.3 1.7 0.7 8 0 1 1 - 48 28.8 10.0 0.7 8 0 1 1 - 48 35.3 1.7 0.7 8 0 1 1 - 48 47.5 1.7 0.7 8 0 1 1 - 48 59.3 1.7 0.7 8 0 1 1 - 48 65.8 0 0.7 8 41.1 0 0 - 48 71.8 1.7 0.7 8 0 1 1 - 48 84.8 0 0.7 8 40.3 0 0 - 48 112.3 0 0.7 8 36.8 0 0 - 48 137.9 0 0.7 8 35.8 0 0 - 49 0. 26.0 1.3 8 0 1 1 - 49 2.0 0 1.3 8 18.8 0 0 - 49 12.0 4.0 1.3 8 0 1 1 - 49 24.0 4.0 1.3 8 0 1 1 - 49 36.0 4.0 1.3 8 0 1 1 - 49 48.0 4.0 1.3 8 0 1 1 - 49 60.5 4.0 1.3 8 0 1 1 - 49 72.0 4.0 1.3 8 0 1 1 - 49 74.0 0 1.3 8 25.1 0 0 - 49 84.0 4.0 1.3 8 0 1 1 - 49 96.0 4.0 1.3 8 0 1 1 - 49 108.5 4.0 1.3 8 0 1 1 - 49 120.0 4.0 1.3 8 0 1 1 - 49 132.0 4.0 1.3 8 0 1 1 - 49 144.0 4.0 1.3 8 0 1 1 - 49 150.0 0 1.3 8 37.2 0 0 - 50 0. 20.0 1.1 6 0 1 1 - 50 3.0 0 1.1 6 22.2 0 0 - 50 12.5 2.5 1.1 6 0 1 1 - 50 24.5 2.5 1.1 6 0 1 1 - 50 36.5 2.5 1.1 6 0 1 1 - 50 48.0 2.5 1.1 6 0 1 1 - 50 60.5 2.5 1.1 6 0 1 1 - 50 72.5 2.5 1.1 6 0 1 1 - 50 81.0 0 1.1 6 30.5 0 0 - 50 84.5 2.5 1.1 6 0 1 1 - 50 88.0 30.0 1.1 6 0 1 1 - 50 89.0 0 1.1 6 67.9 0 0 - 50 96.5 2.5 1.1 6 0 1 1 - 50 108.5 2.5 1.1 6 0 1 1 - 50 120.5 3.5 1.1 6 0 1 1 - 50 132.5 3.5 1.1 6 0 1 1 - 50 144.5 3.5 1.1 6 0 1 1 - 50 157.0 3.5 1.1 6 0 1 1 - 50 162.0 0 1.1 6 58.7 0 0 - 51 0. 18.0 0.9 9 0 1 1 - 51 3.0 0 0.9 9 12.7 0 0 - 51 11.5 2.5 0.9 9 0 1 1 - 51 12.5 9.0 0.9 9 0 1 1 - 51 24.5 2.5 0.9 9 0 1 1 - 51 36.5 2.5 0.9 9 0 1 1 - 51 49.0 2.5 0.9 9 0 1 1 - 51 60.0 0 0.9 9 31.3 0 0 - 51 60.5 2.5 0.9 9 0 1 1 - 51 72.5 2.5 0.9 9 0 1 1 - 51 84.5 2.5 0.9 9 0 1 1 - 51 96.5 2.5 0.9 9 0 1 1 - 51 108.5 2.5 0.9 9 0 1 1 - 51 120.5 2.5 0.9 9 0 1 1 - 51 132.0 0 0.9 9 31.1 0 0 - 52 0. 9.5 0.9 7 0 1 1 - 52 2.0 0 0.9 7 14.3 0 0 - 52 4.0 9.5 0.9 7 0 1 1 - 52 12.5 9.0 0.9 7 0 1 1 - 52 35.5 2.5 0.9 7 0 1 1 - 52 37.5 2.5 0.9 7 0 1 1 - 52 59.5 2.5 0.9 7 0 1 1 - 52 71.5 2.5 0.9 7 0 1 1 - 52 83.0 0 0.9 7 38.1 0 0 - 52 83.5 2.5 0.9 7 0 1 1 - 52 95.5 2.5 0.9 7 0 1 1 - 52 107.5 2.5 0.9 7 0 1 1 - 52 119.5 2.5 0.9 7 0 1 1 - 52 131.5 2.5 0.9 7 0 1 1 - 52 143.5 2.5 0.9 7 0 1 1 - 52 155.0 0 0.9 7 31.2 0 0 - 53 0. 17.0 1.7 8 0 1 1 - 53 4.0 17.0 1.7 8 0 1 1 - 53 6.0 0 1.7 8 19.1 0 0 - 53 23.8 4.0 1.7 8 0 1 1 - 53 27.0 7.5 1.7 8 0 1 1 - 53 28.0 4.0 1.7 8 0 1 1 - 53 39.5 4.0 1.7 8 0 1 1 - 53 47.0 0 1.7 8 33.3 0 0 - 54 0. 18.0 1.8 8 0 1 1 - 54 3.7 18.0 1.8 8 0 1 1 - 54 9.7 0 1.8 8 25.5 0 0 - 54 15.7 4.4 1.8 8 0 1 1 - 54 27.7 4.4 1.8 8 0 1 1 - 54 29.7 0 1.8 8 29.4 0 0 - 54 39.7 4.4 1.8 8 0 1 1 - 54 51.7 4.4 1.8 8 0 1 1 - 54 63.2 0 1.8 8 29.5 0 0 - 54 63.7 4.4 1.8 8 0 1 1 - 54 75.7 4.4 1.8 8 0 1 1 - 54 87.7 4.4 1.8 8 0 1 1 - 54 99.7 4.4 1.8 8 0 1 1 - 54 111.3 0 1.8 8 37.9 0 0 - 55 0. 25.0 1.1 4 0 1 1 - 55 12.0 3.0 1.1 4 0 1 1 - 55 24.0 3.0 1.1 4 0 1 1 - 55 36.0 3.0 1.1 4 0 1 1 - 55 48.0 3.0 1.1 4 0 1 1 - 55 60.0 3.0 1.1 4 0 1 1 - 55 72.0 3.0 1.1 4 0 1 1 - 55 74.0 0 1.1 4 20.8 0 0 - 56 0. 12.0 0.6 4 0 1 1 - 56 12.7 1.5 0.6 4 0 1 1 - 56 20.0 0 0.6 4 18.8 0 0 - 57 0. 20.0 2.1 6 0 1 1 - 57 0.5 20.0 2.1 6 0 1 1 - 57 1.7 0 2.1 6 20.2 0 0 - 57 12.2 5.0 2.1 6 0 1 1 - 57 24.7 5.0 2.1 6 0 1 1 - 57 37.2 5.0 2.1 6 0 1 1 - 57 47.8 5.0 2.1 6 0 1 1 - 57 60.2 5.0 2.1 6 0 1 1 - 57 72.2 6.0 2.1 6 0 1 1 - 57 84.2 6.0 2.1 6 0 1 1 - 57 96.2 6.0 2.1 6 0 1 1 - 57 109.0 0 2.1 6 27.8 0 0 - 58 0. 14.0 1.4 8 0 1 1 - 58 0.5 14.0 1.4 8 0 1 1 - 58 8.5 0 1.4 8 22.4 0 0 - 58 12.0 3.5 1.4 8 0 1 1 - 58 24.3 3.5 1.4 8 0 1 1 - 58 35.8 3.5 1.4 8 0 1 1 - 58 47.5 0 1.4 8 27.9 0 0 - 58 48.0 3.5 1.4 8 0 1 1 - 58 59.5 3.5 1.4 8 0 1 1 - 58 72.0 3.5 1.4 8 0 1 1 - 58 84.0 3.5 1.4 8 0 1 1 - 58 96.3 3.5 1.4 8 0 1 1 - 58 107.0 3.5 1.4 8 0 1 1 - 58 120.3 3.5 1.4 8 0 1 1 - 58 131.8 0 1.4 8 31.0 0 0 - 59 0. 22.8 1.1 6 0 1 1 - 59 1.8 0 1.1 6 22.6 0 0 - 59 12.5 3.0 1.1 6 0 1 1 - 59 24.3 3.0 1.1 6 0 1 1 - 59 36.3 3.0 1.1 6 0 1 1 - 59 48.8 3.0 1.1 6 0 1 1 - 59 60.3 3.0 1.1 6 0 1 1 - 59 72.3 3.0 1.1 6 0 1 1 - 59 73.8 0 1.1 6 34.3 0 0 - 59 84.3 3.0 1.1 6 0 1 1 - 59 96.0 3.0 1.1 6 0 1 1 - 59 108.3 3.0 1.1 6 0 1 1 - 59 120.5 3.0 1.1 6 0 1 1 - 59 132.3 3.0 1.1 6 0 1 1 - 59 144.8 3.0 1.1 6 0 1 1 - 59 146.8 0 1.1 6 40.2 0 0 diff --git a/test/rplots/test_files/bootstrap/run1/run1.cov b/test/rplots/test_files/bootstrap/run1/run1.cov deleted file mode 100644 index ded06729c..000000000 --- a/test/rplots/test_files/bootstrap/run1/run1.cov +++ /dev/null @@ -1,8 +0,0 @@ -TABLE NO. 1: First Order Conditional Estimation: Problem=1 Subproblem=0 Superproblem1=0 Iteration1=0 Superproblem2=0 Iteration2=0 - NAME THETA1 THETA2 SIGMA(1,1) OMEGA(1,1) OMEGA(2,1) OMEGA(2,2) - THETA1 1.42884E-07 7.14929E-06 -4.39796E-07 -1.88008E-05 0.00000E+00 1.58882E-07 - THETA2 7.14929E-06 7.47316E-03 3.56146E-05 -8.43000E-04 0.00000E+00 2.43705E-03 - SIGMA(1,1) -4.39796E-07 3.56146E-05 1.44576E-05 1.73875E-04 0.00000E+00 7.00715E-06 - OMEGA(1,1) -1.88008E-05 -8.43000E-04 1.73875E-04 7.65227E-03 0.00000E+00 -5.01773E-04 - OMEGA(2,1) 0.00000E+00 0.00000E+00 0.00000E+00 0.00000E+00 0.00000E+00 0.00000E+00 - OMEGA(2,2) 1.58882E-07 2.43705E-03 7.00715E-06 -5.01773E-04 0.00000E+00 2.21496E-03 diff --git a/test/rplots/test_files/bootstrap/run1/run1.ext b/test/rplots/test_files/bootstrap/run1/run1.ext deleted file mode 100644 index 81112a1f3..000000000 --- a/test/rplots/test_files/bootstrap/run1/run1.ext +++ /dev/null @@ -1,11 +0,0 @@ -TABLE NO. 1: First Order Conditional Estimation: Goal Function=MINIMUM VALUE OF OBJECTIVE FUNCTION: Problem=1 Subproblem=0 Superproblem1=0 Iteration1=0 Superproblem2=0 Iteration2=0 - ITERATION THETA1 THETA2 SIGMA(1,1) OMEGA(1,1) OMEGA(2,1) OMEGA(2,2) OBJ - 0 1.05000E-02 1.05000E+00 4.00000E-02 4.00000E-01 0.00000E+00 2.50000E-01 816.73559243476620 - 14 5.34888E-03 1.42034E+00 1.88207E-02 1.30796E-01 0.00000E+00 1.77433E-01 740.27802546942110 - -1000000000 5.34888E-03 1.42034E+00 1.88207E-02 1.30796E-01 0.00000E+00 1.77433E-01 740.27802546942110 - -1000000001 3.77999E-04 8.64474E-02 3.80231E-03 8.74773E-02 1.00000E+10 4.70634E-02 0.0000000000000000 - -1000000002 2.98131E-01 3.98573E-01 7.16619E-01 1.59140E+00 1.99528E+00 0.00000E+00 0.0000000000000000 - -1000000003 6.69262E+00 2.98131E-01 1.99528E+00 0.00000E+00 0.00000E+00 0.00000E+00 0.0000000000000000 - -1000000004 0.00000E+00 0.00000E+00 1.37188E-01 3.61658E-01 0.00000E+00 4.21229E-01 0.0000000000000000 - -1000000005 0.00000E+00 0.00000E+00 1.38580E-02 1.20939E-01 1.00000E+10 5.58645E-02 0.0000000000000000 - -1000000006 0.00000E+00 0.00000E+00 0.00000E+00 0.00000E+00 1.00000E+00 0.00000E+00 0.0000000000000000 diff --git a/test/rplots/test_files/bootstrap/run1/run1.lst b/test/rplots/test_files/bootstrap/run1/run1.lst deleted file mode 100644 index 0a58a1f14..000000000 --- a/test/rplots/test_files/bootstrap/run1/run1.lst +++ /dev/null @@ -1,530 +0,0 @@ -Thu Aug 25 13:25:51 CEST 2016 -$PROBLEM PHENOBARB SIMPLE MODEL -$INPUT ID TIME AMT WGT APGR DV -$DATA pheno.dta IGNORE=@ -$SUBROUTINE ADVAN1 TRANS2 -$PK - - TVCL=THETA(1) - TVV=THETA(2) - CL=TVCL*EXP(ETA(1)) - V=TVV*EXP(ETA(2)) - S1=V -$ERROR - - W=F - Y=F+W*EPS(1) - - IPRED=F ; individual-specific prediction - IRES=DV-IPRED ; individual-specific residual - IWRES=IRES/W ; individual-specific weighted residual - -$THETA (0,0.0105) ; CL -$THETA (0,1.0500) ; V -$OMEGA .4 ; IVCL - .25 ; IVV -$SIGMA .04 -$ESTIMATION METHOD=COND MAXEVALS=9997 -$COVARIANCE PRINT=E -$TABLE ID CL V ETA1 ETA2 NOPRINT ONEHEADER FILE=patab1 -$TABLE ID TIME IPRED IWRES CWRES NOPRINT ONEHEADER FILE=sdtab1 -$TABLE ID WGT APGR NOPRINT ONEHEADER FILE=cotab1 - - -NM-TRAN MESSAGES - - WARNINGS AND ERRORS (IF ANY) FOR PROBLEM 1 - - (WARNING 2) NM-TRAN INFERS THAT THE DATA ARE POPULATION. - -License Registered to: Uppsala University -Expiration Date: 14 MAR 2017 -Current Date: 25 AUG 2016 -Days until program expires : 204 -1NONLINEAR MIXED EFFECTS MODEL PROGRAM (NONMEM) VERSION 7.3.0 - ORIGINALLY DEVELOPED BY STUART BEAL, LEWIS SHEINER, AND ALISON BOECKMANN - CURRENT DEVELOPERS ARE ROBERT BAUER, ICON DEVELOPMENT SOLUTIONS, - AND ALISON BOECKMANN. IMPLEMENTATION, EFFICIENCY, AND STANDARDIZATION - PERFORMED BY NOUS INFOSYSTEMS. - - PROBLEM NO.: 1 - PHENOBARB SIMPLE MODEL -0DATA CHECKOUT RUN: NO - DATA SET LOCATED ON UNIT NO.: 2 - THIS UNIT TO BE REWOUND: NO - NO. OF DATA RECS IN DATA SET: 744 - NO. OF DATA ITEMS IN DATA SET: 8 - ID DATA ITEM IS DATA ITEM NO.: 1 - DEP VARIABLE IS DATA ITEM NO.: 6 - MDV DATA ITEM IS DATA ITEM NO.: 8 -0INDICES PASSED TO SUBROUTINE PRED: - 7 2 3 0 0 0 0 0 0 0 0 -0LABELS FOR DATA ITEMS: - ID TIME AMT WGT APGR DV EVID MDV -0(NONBLANK) LABELS FOR PRED-DEFINED ITEMS: - CL V IPRED IWRES -0FORMAT FOR DATA: - (6E6.0,2F2.0) - - TOT. NO. OF OBS RECS: 155 - TOT. NO. OF INDIVIDUALS: 59 -0LENGTH OF THETA: 2 -0DEFAULT THETA BOUNDARY TEST OMITTED: NO -0OMEGA HAS SIMPLE DIAGONAL FORM WITH DIMENSION: 2 -0DEFAULT OMEGA BOUNDARY TEST OMITTED: NO -0SIGMA HAS SIMPLE DIAGONAL FORM WITH DIMENSION: 1 -0DEFAULT SIGMA BOUNDARY TEST OMITTED: NO -0INITIAL ESTIMATE OF THETA: - LOWER BOUND INITIAL EST UPPER BOUND - 0.0000E+00 0.1050E-01 0.1000E+07 - 0.0000E+00 0.1050E+01 0.1000E+07 -0INITIAL ESTIMATE OF OMEGA: - 0.4000E+00 - 0.0000E+00 0.2500E+00 -0INITIAL ESTIMATE OF SIGMA: - 0.4000E-01 -0COVARIANCE STEP OMITTED: NO - EIGENVLS. PRINTED: YES - SPECIAL COMPUTATION: NO - COMPRESSED FORMAT: NO - SIGDIGITS ETAHAT (SIGLO): -1 - SIGDIGITS GRADIENTS (SIGL): -1 - RELATIVE TOLERANCE (TOL): -1 - ABSOLUTE TOLERANCE-ADVAN 9,13 ONLY (ATOL): -1 - EXCLUDE COV FOR FOCE (NOFCOV): NO - RESUME COV ANALYSIS (RESUME): NO -0TABLES STEP OMITTED: NO - NO. OF TABLES: 3 - SEED NUMBER (SEED): 11456 - RANMETHOD: - MC SAMPLES (ESEED): 300 - WRES SQUARE ROOT TYPE: EIGENVALUE -0-- TABLE 1 -- - PRINTED: NO - HEADER: YES - FILE TO BE FORWARDED: NO - FORMAT: S1PE11.4 - LFORMAT: - RFORMAT: -0USER-CHOSEN ITEMS: - ID CL V ETA1 ETA2 -0-- TABLE 2 -- - PRINTED: NO - HEADER: YES - FILE TO BE FORWARDED: NO - FORMAT: S1PE11.4 - LFORMAT: - RFORMAT: -0USER-CHOSEN ITEMS: - ID TIME IPRED IWRES CWRES -0-- TABLE 3 -- - PRINTED: NO - HEADER: YES - FILE TO BE FORWARDED: NO - FORMAT: S1PE11.4 - LFORMAT: - RFORMAT: -0USER-CHOSEN ITEMS: - ID WGT APGR -1DOUBLE PRECISION PREDPP VERSION 7.3.0 - - ONE COMPARTMENT MODEL (ADVAN1) -0MAXIMUM NO. OF BASIC PK PARAMETERS: 2 -0BASIC PK PARAMETERS (AFTER TRANSLATION): - ELIMINATION RATE (K) IS BASIC PK PARAMETER NO.: 1 - - TRANSLATOR WILL CONVERT PARAMETERS - CLEARANCE (CL) AND VOLUME (V) TO K (TRANS2) -0COMPARTMENT ATTRIBUTES - COMPT. NO. FUNCTION INITIAL ON/OFF DOSE DEFAULT DEFAULT - STATUS ALLOWED ALLOWED FOR DOSE FOR OBS. - 1 CENTRAL ON NO YES YES YES - 2 OUTPUT OFF YES NO NO NO -1 - ADDITIONAL PK PARAMETERS - ASSIGNMENT OF ROWS IN GG - COMPT. NO. INDICES - SCALE BIOAVAIL. ZERO-ORDER ZERO-ORDER ABSORB - FRACTION RATE DURATION LAG - 1 3 * * * * - 2 * - - - - - - PARAMETER IS NOT ALLOWED FOR THIS MODEL - * PARAMETER IS NOT SUPPLIED BY PK SUBROUTINE; - WILL DEFAULT TO ONE IF APPLICABLE -0DATA ITEM INDICES USED BY PRED ARE: - EVENT ID DATA ITEM IS DATA ITEM NO.: 7 - TIME DATA ITEM IS DATA ITEM NO.: 2 - DOSE AMOUNT DATA ITEM IS DATA ITEM NO.: 3 - -0PK SUBROUTINE CALLED WITH EVERY EVENT RECORD. - PK SUBROUTINE NOT CALLED AT NONEVENT (ADDITIONAL OR LAGGED) DOSE TIMES. -0ERROR SUBROUTINE CALLED WITH EVERY EVENT RECORD. -1 - - - #TBLN: 1 - #METH: First Order Conditional Estimation - - ESTIMATION STEP OMITTED: NO - ANALYSIS TYPE: POPULATION - CONDITIONAL ESTIMATES USED: YES - CENTERED ETA: NO - EPS-ETA INTERACTION: NO - LAPLACIAN OBJ. FUNC.: NO - NO. OF FUNCT. EVALS. ALLOWED: 9997 - NO. OF SIG. FIGURES REQUIRED: 3 - INTERMEDIATE PRINTOUT: YES - ESTIMATE OUTPUT TO MSF: NO - IND. OBJ. FUNC. VALUES SORTED: NO - NUMERICAL DERIVATIVE - FILE REQUEST (NUMDER): NONE - MAP (ETAHAT) ESTIMATION METHOD (OPTMAP): 0 - ETA HESSIAN EVALUATION METHOD (ETADER): 0 - INITIAL ETA FOR MAP ESTIMATION (MCETA): 0 - SIGDIGITS FOR MAP ESTIMATION (SIGLO): 100 - GRADIENT SIGDIGITS OF - FIXED EFFECTS PARAMETERS (SIGL): 100 - EXCLUDE TITLE (NOTITLE): NO - EXCLUDE COLUMN LABELS (NOLABEL): NO - NOPRIOR SETTING (NOPRIOR): OFF - NOCOV SETTING (NOCOV): OFF - DERCONT SETTING (DERCONT): OFF - ABSOLUTE TOLERANCE-ADVAN 9,13 ONLY(ATOL):-100 - FINAL ETA RE-EVALUATION (FNLETA): ON - EXCLUDE NON-INFLUENTIAL (NON-INFL.) ETAS - IN SHRINKAGE (ETASTYPE): NO - NON-INFL. ETA CORRECTION (NONINFETA): OFF - FORMAT FOR ADDITIONAL FILES (FORMAT): S1PE12.5 - PARAMETER ORDER FOR OUTPUTS (ORDER): TSOL - ADDITIONAL CONVERGENCE TEST (CTYPE=4)?: NO - EM OR BAYESIAN METHOD USED: NONE - - - THE FOLLOWING LABELS ARE EQUIVALENT - PRED=NPRED - RES=NRES - WRES=NWRES - IWRS=NIWRES - IPRD=NIPRED - IRS=NIRES - - MONITORING OF SEARCH: - - -0ITERATION NO.: 0 OBJECTIVE VALUE: 816.735592434766 NO. OF FUNC. EVALS.: 5 - CUMULATIVE NO. OF FUNC. EVALS.: 5 - NPARAMETR: 1.0500E-02 1.0500E+00 4.0000E-01 2.5000E-01 4.0000E-02 - PARAMETER: 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 - GRADIENT: 6.4038E+01 -1.3854E+02 -7.2624E+00 2.7309E+01 6.4546E+01 - -0ITERATION NO.: 14 OBJECTIVE VALUE: 740.278025469421 NO. OF FUNC. EVALS.: 6 - CUMULATIVE NO. OF FUNC. EVALS.: 107 - NPARAMETR: 5.3489E-03 1.4203E+00 1.3080E-01 1.7743E-01 1.8821E-02 - PARAMETER: -5.7449E-01 4.0210E-01 -4.5891E-01 -7.1433E-02 -2.7696E-01 - GRADIENT: -1.5840E-03 -5.1606E-03 -5.6924E-04 -4.5085E-03 4.8189E-03 - - #TERM: -0MINIMIZATION SUCCESSFUL - NO. OF FUNCTION EVALUATIONS USED: 107 - NO. OF SIG. DIGITS IN FINAL EST.: 3.6 - - ETABAR IS THE ARITHMETIC MEAN OF THE ETA-ESTIMATES, - AND THE P-VALUE IS GIVEN FOR THE NULL HYPOTHESIS THAT THE TRUE MEAN IS 0. - - ETABAR: 5.5413E-03 -1.3062E-02 - SE: 2.8607E-02 5.1845E-02 - N: 59 59 - - P VAL.: 8.4641E-01 8.0108E-01 - - ETAshrink(%): 3.8721E+01 4.6492E+00 - EBVshrink(%): 3.8428E+01 4.4592E+00 - EPSshrink(%): 2.7971E+01 - - #TERE: - Elapsed estimation time in seconds: 0.51 - Elapsed covariance time in seconds: 0.31 -1 - - - - - - - - - - - - - - - - - - - - - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - #OBJT:************** MINIMUM VALUE OF OBJECTIVE FUNCTION ******************** - ******************** ******************** - ************************************************************************************************************************ - - - - - - - #OBJV:******************************************** 740.278 ************************************************** -1 - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - ******************** FINAL PARAMETER ESTIMATE ******************** - ******************** ******************** - ************************************************************************************************************************ - - - - THETA - VECTOR OF FIXED EFFECTS PARAMETERS ********* - - - TH 1 TH 2 - - 5.35E-03 1.42E+00 - - - - OMEGA - COV MATRIX FOR RANDOM EFFECTS - ETAS ******** - - - ETA1 ETA2 - - ETA1 -+ 1.31E-01 - - ETA2 -+ 0.00E+00 1.77E-01 - - - - SIGMA - COV MATRIX FOR RANDOM EFFECTS - EPSILONS **** - - - EPS1 - - EPS1 -+ 1.88E-02 - -1 - - - OMEGA - CORR MATRIX FOR RANDOM EFFECTS - ETAS ******* - - - ETA1 ETA2 - - ETA1 -+ 3.62E-01 - - ETA2 -+ 0.00E+00 4.21E-01 - - - - SIGMA - CORR MATRIX FOR RANDOM EFFECTS - EPSILONS *** - - - EPS1 - - EPS1 -+ 1.37E-01 - -1 - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - ******************** STANDARD ERROR OF ESTIMATE ******************** - ******************** ******************** - ************************************************************************************************************************ - - - - THETA - VECTOR OF FIXED EFFECTS PARAMETERS ********* - - - TH 1 TH 2 - - 3.78E-04 8.64E-02 - - - - OMEGA - COV MATRIX FOR RANDOM EFFECTS - ETAS ******** - - - ETA1 ETA2 - - ETA1 -+ 8.75E-02 - - ETA2 -+ ......... 4.71E-02 - - - - SIGMA - COV MATRIX FOR RANDOM EFFECTS - EPSILONS **** - - - EPS1 - - EPS1 -+ 3.80E-03 - -1 - - - OMEGA - CORR MATRIX FOR RANDOM EFFECTS - ETAS ******* - - - ETA1 ETA2 - - ETA1 -+ 1.21E-01 - - ETA2 -+ ......... 5.59E-02 - - - - SIGMA - CORR MATRIX FOR RANDOM EFFECTS - EPSILONS *** - - - EPS1 - - EPS1 -+ 1.39E-02 - -1 - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - ******************** COVARIANCE MATRIX OF ESTIMATE ******************** - ******************** ******************** - ************************************************************************************************************************ - - - TH 1 TH 2 OM11 OM12 OM22 SG11 - - TH 1 -+ 1.43E-07 - - TH 2 -+ 7.15E-06 7.47E-03 - - OM11 -+ -1.88E-05 -8.43E-04 7.65E-03 - - OM12 -+ ......... ......... ......... ......... - - OM22 -+ 1.59E-07 2.44E-03 -5.02E-04 ......... 2.21E-03 - - SG11 -+ -4.40E-07 3.56E-05 1.74E-04 ......... 7.01E-06 1.45E-05 - -1 - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - ******************** CORRELATION MATRIX OF ESTIMATE ******************** - ******************** ******************** - ************************************************************************************************************************ - - - TH 1 TH 2 OM11 OM12 OM22 SG11 - - TH 1 -+ 3.78E-04 - - TH 2 -+ 2.19E-01 8.64E-02 - - OM11 -+ -5.69E-01 -1.11E-01 8.75E-02 - - OM12 -+ ......... ......... ......... ......... - - OM22 -+ 8.93E-03 5.99E-01 -1.22E-01 ......... 4.71E-02 - - SG11 -+ -3.06E-01 1.08E-01 5.23E-01 ......... 3.92E-02 3.80E-03 - -1 - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - ******************** INVERSE COVARIANCE MATRIX OF ESTIMATE ******************** - ******************** ******************** - ************************************************************************************************************************ - - - TH 1 TH 2 OM11 OM12 OM22 SG11 - - TH 1 -+ 1.14E+07 - - TH 2 -+ -1.53E+04 2.35E+02 - - OM11 -+ 2.65E+04 -1.06E+01 2.49E+02 - - OM12 -+ ......... ......... ......... ......... - - OM22 -+ 2.18E+04 -2.57E+02 7.32E+01 ......... 7.49E+02 - - SG11 -+ 5.52E+04 -7.92E+02 -2.20E+03 ......... 5.43E+01 9.93E+04 - -1 - - - - - - - - - - - - - - - - - - - - - ************************************************************************************************************************ - ******************** ******************** - ******************** FIRST ORDER CONDITIONAL ESTIMATION ******************** - ******************** EIGENVALUES OF COR MATRIX OF ESTIMATE ******************** - ******************** ******************** - ************************************************************************************************************************ - - - 1 2 3 4 5 - - 2.98E-01 3.99E-01 7.17E-01 1.59E+00 2.00E+00 - - #CPUT: Total CPU Time in Seconds, 0.892 -Stop Time: -Thu Aug 25 13:25:52 CEST 2016 diff --git a/test/rplots/test_files/bootstrap/run1/run1.mod b/test/rplots/test_files/bootstrap/run1/run1.mod deleted file mode 100644 index 4479b8ea8..000000000 --- a/test/rplots/test_files/bootstrap/run1/run1.mod +++ /dev/null @@ -1,35 +0,0 @@ - -$PROBLEM PHENOBARB SIMPLE MODEL -$INPUT ID TIME AMT WGT APGR DV -$DATA pheno.dta IGNORE=@ -$SUBROUTINE ADVAN1 TRANS2 -$PK - - TVCL=THETA(1) - TVV=THETA(2) - CL=TVCL*EXP(ETA(1)) - V=TVV*EXP(ETA(2)) - S1=V -$ERROR - - W=F - Y=F+W*EPS(1) - - IPRED=F ; individual-specific prediction - IRES=DV-IPRED ; individual-specific residual - IWRES=IRES/W ; individual-specific weighted residual - -$THETA (0,0.0105) ; CL - -$THETA (0,1.0500) ; V - -$OMEGA .4 ; IVCL - .25 ; IVV - -$SIGMA .04 - -$ESTIMATION METHOD=COND MAXEVALS=9997 -$COVARIANCE PRINT=E -$TABLE ID CL V ETA1 ETA2 NOPRINT ONEHEADER FILE=patab1 -$TABLE ID TIME IPRED IWRES CWRES NOPRINT ONEHEADER FILE=sdtab1 -$TABLE ID WGT APGR NOPRINT ONEHEADER FILE=cotab1 diff --git a/test/rplots/test_files/bootstrap/run1/run1.phi b/test/rplots/test_files/bootstrap/run1/run1.phi deleted file mode 100644 index 4afb85b12..000000000 --- a/test/rplots/test_files/bootstrap/run1/run1.phi +++ /dev/null @@ -1,61 +0,0 @@ -TABLE NO. 1: First Order Conditional Estimation: Problem=1 Subproblem=0 Superproblem1=0 Iteration1=0 Superproblem2=0 Iteration2=0 - SUBJECT_NO ID ETA(1) ETA(2) ETC(1,1) ETC(2,1) ETC(2,2) OBJ - 1 1 -4.04612E-02 -5.78213E-03 9.86201E-02 -1.24171E-02 1.29133E-02 7.6533961007565932 - 2 2 -2.10000E-01 -5.98383E-02 9.41037E-02 -1.37493E-02 8.89271E-03 11.528766454822319 - 3 3 2.06223E-01 2.12166E-01 9.49673E-02 -1.74267E-02 1.62561E-02 12.559475540924886 - 4 4 -2.19291E-01 -4.59403E-01 4.37860E-02 -8.79377E-03 5.82390E-03 11.696537745066081 - 5 5 1.44672E-01 3.12772E-01 1.06746E-01 -1.57516E-02 1.63324E-02 11.163126522250103 - 6 6 -4.58414E-02 -3.39941E-02 7.95785E-02 -1.39093E-02 1.04527E-02 13.959089725188361 - 7 7 -4.10156E-02 -3.07384E-01 3.79019E-02 -8.71348E-03 8.11208E-03 10.596088144094875 - 8 8 2.74831E-02 -4.24638E-01 3.50111E-02 -7.82237E-03 6.86807E-03 13.015688638545623 - 9 9 -1.18718E-01 -1.39018E-01 1.23823E-02 -2.56694E-03 7.51524E-03 14.819573145135420 - 10 10 1.00958E-01 -4.58578E-03 7.41264E-02 -1.44621E-02 1.20831E-02 11.271887801056746 - 11 11 3.45416E-02 3.02311E-01 1.28952E-01 -1.61375E-02 3.61962E-02 5.3677884866160230 - 12 12 6.24475E-02 2.25130E-04 1.62966E-02 -2.33734E-03 1.30560E-02 12.157797085485779 - 13 13 -2.05339E-01 -4.49276E-01 4.97164E-02 -1.58579E-02 1.28773E-02 9.7439457112333425 - 14 14 8.10886E-02 -4.15665E-01 8.39927E-03 -6.29167E-04 5.07546E-03 18.851695280482634 - 15 15 4.14604E-02 -3.93555E-04 9.23370E-02 -2.00400E-02 1.81984E-02 7.7505943072243948 - 16 16 -2.10283E-01 -1.26369E-01 8.21229E-02 -1.39157E-02 8.79794E-03 11.734833069396675 - 17 17 -2.21009E-01 -2.73442E-01 7.20187E-02 -1.99101E-02 1.15809E-02 12.249237935098060 - 18 18 2.88355E-01 -3.19385E-01 9.43884E-03 3.96352E-04 6.49870E-03 20.937685866177084 - 19 19 9.14002E-04 -2.82459E-01 4.70463E-02 -1.19561E-02 9.63660E-03 11.809073469698410 - 20 20 5.24225E-02 -2.90362E-01 5.23399E-02 -1.06046E-02 8.06278E-03 11.680674034955507 - 21 21 2.84582E-01 1.46202E-01 3.11110E-02 -6.73847E-03 1.81491E-02 13.156153637656317 - 22 22 2.83524E-02 -2.28018E-02 1.19145E-01 -1.00981E-02 1.10762E-02 7.6185720277906164 - 23 23 1.54826E-01 7.20026E-01 1.24541E-01 -1.41551E-02 2.62355E-02 19.031401397023405 - 24 24 1.95298E-01 9.35280E-01 1.22550E-01 -1.48793E-02 3.51812E-02 25.523158604210650 - 25 25 -3.30254E-01 -2.50439E-01 5.82640E-02 -1.05854E-02 4.52272E-03 29.453437398087253 - 26 26 7.76366E-02 7.21765E-01 1.28441E-01 -1.24170E-02 3.47405E-02 14.539531110325036 - 27 27 1.23123E-01 -2.73278E-02 9.90253E-02 -1.18352E-02 1.26801E-02 9.1708769742646279 - 28 28 1.88133E-03 6.36826E-01 1.30795E-01 -3.79993E-04 4.88070E-02 7.9426959023350037 - 29 29 -6.39108E-02 -3.45353E-01 1.25458E-01 -2.88463E-02 2.15574E-02 4.9297677590453697 - 30 30 3.33987E-01 3.06613E-01 5.07778E-02 -9.18496E-03 2.95197E-02 9.7044590998884424 - 31 31 -5.69488E-04 -1.72043E-01 1.30794E-01 -5.45851E-04 1.25309E-02 4.9503653098911613 - 32 32 4.41546E-02 1.05192E+00 1.30086E-01 -4.63085E-03 3.83132E-02 22.960278732647367 - 33 33 1.15737E-03 9.70711E-02 1.18870E-01 -1.05904E-02 1.35542E-02 7.9591229178893110 - 34 34 5.34255E-02 9.33133E-02 1.10034E-01 -1.18337E-02 1.44324E-02 8.2936410562355487 - 35 35 1.10015E-02 3.32518E-01 1.22006E-01 -1.45445E-02 2.09986E-02 10.125729087428105 - 36 36 3.67960E-01 -4.53822E-02 1.65615E-02 3.73757E-04 1.26773E-02 14.203017962165507 - 37 37 -1.70489E-02 -1.44143E-01 6.46030E-02 -1.06840E-02 1.19907E-02 8.1937385748755762 - 38 38 2.63418E-01 9.17181E-03 1.54562E-02 -2.91021E-03 1.27381E-02 16.304083473433668 - 39 39 4.69430E-01 2.34182E-01 3.01845E-02 -3.86656E-03 2.05483E-02 16.590346274152061 - 40 40 -7.45361E-04 -3.85638E-02 1.30775E-01 -8.49965E-04 8.42204E-03 6.6420905818990619 - 41 41 4.01274E-02 3.02855E-01 1.25671E-01 -9.17701E-03 1.26280E-02 12.198676269759432 - 42 42 6.74938E-02 9.35396E-01 1.29639E-01 -6.60279E-03 4.45217E-02 15.818790347695025 - 43 43 -5.46301E-03 -5.58535E-01 1.30780E-01 -1.67489E-03 6.19314E-03 6.2716142542053754 - 44 44 2.09592E-01 4.89341E-02 1.90131E-02 -2.52562E-03 1.51636E-02 11.371753037732763 - 45 45 -1.94453E-01 -4.27591E-01 5.90883E-02 -1.09154E-02 6.10438E-03 9.8178106490078232 - 46 46 -1.59210E-03 -2.52803E-01 1.30790E-01 -1.04887E-03 1.08876E-02 4.6698449532895294 - 47 47 2.41874E-02 4.38886E-01 1.30375E-01 -7.64778E-03 3.86629E-02 6.4439751035090351 - 48 48 -1.16227E+00 -5.84349E-01 5.87352E-02 -9.31699E-03 2.74469E-03 42.245211268396474 - 49 49 3.64809E-02 2.04620E-02 8.34855E-02 -1.49162E-02 1.17197E-02 12.122725748096570 - 50 50 -1.02850E-01 -4.98716E-01 3.42118E-02 -7.75666E-03 4.90947E-03 18.166996466878832 - 51 51 -2.70908E-01 -1.72042E-01 7.77516E-02 -1.30171E-02 8.02641E-03 14.979147160568310 - 52 52 2.72851E-02 -7.79123E-01 1.10197E-02 -2.28373E-03 3.98195E-03 17.368786730271271 - 53 53 -5.53334E-02 1.03572E-01 1.26456E-01 -7.54130E-03 1.24422E-02 9.0672046150658350 - 54 54 2.62809E-02 -1.16448E-02 9.15274E-02 -1.45626E-02 8.49676E-03 15.321559168846770 - 55 55 2.64008E-02 1.65217E-01 1.27148E-01 -2.28300E-02 3.45626E-02 4.4131544262918601 - 56 56 -9.64983E-02 -8.00393E-01 1.28347E-01 -2.03130E-02 8.94984E-03 7.6442487765426712 - 57 57 1.15113E-01 3.67302E-01 1.17097E-01 -1.23619E-02 2.19429E-02 9.9828578433174613 - 58 58 1.22544E-01 -1.71067E-01 6.34783E-02 -1.33956E-02 1.02317E-02 11.913928091700106 - 59 59 -2.05511E-01 -3.71325E-01 5.13531E-02 -1.03039E-02 6.74383E-03 12.620317612792848 diff --git a/test/rplots/test_files/bootstrap/run1/rundir/bootstrap_results.csv b/test/rplots/test_files/bootstrap/run1/rundir/bootstrap_results.csv deleted file mode 100644 index 1b46eb3c5..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/bootstrap_results.csv +++ /dev/null @@ -1,36 +0,0 @@ -,"",,1 runs with estimates near a boundary were skipped when calculating the bootstrap results, -diagnostic.means -"","covariance.step.run","minimization.successful","covariance.step.successful","covariance.step.warnings","estimate.near.boundary","rounding.errors","zero.gradients","final.zero.gradients"," hessian.reset","s.matrix.singular","significant.digits","condition.number"," est.methods","model.run.time","subprob.est.time","subprob.cov.time", -"", 1, 1, 0.9666667, 0, 0.03333333, 0, 0.03333333, 0.03333333, 0, 0, 3.963333, 8.559679, 0, 0, 0.9606667, 0.607, -means -""," ofv"," CL"," V"," IVCL"," IVV"," SIGMA(1,1)"," seCL"," seV"," seIVCL"," seIVV"," seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)"," EI1"," EI2"," EI3"," EI4"," EI5", -"", 716.4161, 0.005425992, 1.392399, 0.1218262, 0.1556498, 0.01753157, 0.0003515481, 0.07852037, 0.06740799, 0.0415999, 0.003481191, 0, 0, 0, 0.2565171, 0.4758646, 0.8550946, 1.477212, 1.935311, -bias -""," ofv"," CL"," V"," IVCL"," IVV"," SIGMA(1,1)"," seCL"," seV"," seIVCL"," seIVV"," seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)"," EI1"," EI2"," EI3"," EI4"," EI5", -"",-23.8619589746168,7.7112068965518e-05,-0.0279413793103449,-0.0089697724137931,-0.0217832482758621,-0.00128913206896552,-2.64509310344829e-05,-0.00792703103448276,-0.0200693072413793,-0.00546350344827586,-0.000321118620689655, NA, NA, NA,-0.0416138620689655, 0.07729159, 0.1384756,-0.114187586206897,-0.0599693103448273, -standard.error.confidence.intervals -""," ofv"," CL"," V"," IVCL"," IVV"," SIGMA(1,1)"," seCL"," seV"," seIVCL"," seIVV"," seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)"," EI1"," EI2"," EI3"," EI4"," EI5", -" 0.05%", 573.5689, 0.004041474, 1.08979,-0.205148944123599, 0.02154356, 0.006415273, 0.0001326497, 0.03288051,-0.0978742397863846, 0.01091822, 0.001774637, 0, 0, 0, 0.04204382,-0.134611511588055, 0.1441018, 1.020719, 1.302533, -" 0.5%", 609.7783, 0.004325444, 1.161586,-0.132181355135562, 0.05540291, 0.009109745, 0.0001859398, 0.04451529,-0.0576156938251845, 0.01876899, 0.002215049, 0, 0, 0, 0.09766622,-0.0188032847435077, 0.2684531, 1.144672, 1.452999, -" 2.5%", 640.977, 0.004570118, 1.223446,-0.0693110021219432, 0.08457681, 0.01143136, 0.0002318557, 0.05454006,-0.0229281149768466, 0.02553337, 0.002594518, 0, 0, 0, 0.1455916, 0.08097943, 0.3755968, 1.251472, 1.582643, -" 5%", 656.9412, 0.004695316, 1.2551,-0.0371407386685635, 0.09950486, 0.01261931, 0.0002553505, 0.05966965,-0.00517875464051788, 0.02899465, 0.002788689, 0, 0, 0, 0.1701147, 0.1320375, 0.4304213, 1.30612, 1.64898, -" 95%", 823.6149, 0.006002444, 1.58558, 0.2987327, 0.2553611, 0.02502209, 0.0005006475, 0.1132251, 0.1801334, 0.06513215, 0.004815931, 0, 0, 0, 0.4261473, 0.6651085, 1.002817, 1.87668, 2.34158, -" 97.5%", 839.579, 0.006127642, 1.617234, 0.330903, 0.2702892, 0.02621004, 0.0005241423, 0.1183547, 0.1978827, 0.06859343, 0.005010102, 0, 0, 0, 0.4506704, 0.7161666, 1.057641, 1.931328, 2.407917, -" 99.5%", 870.7778, 0.006372316, 1.679094, 0.3937734, 0.2994631, 0.02853166, 0.0005700582, 0.1283795, 0.2325703, 0.07535781, 0.005389571, 0, 0, 0, 0.4985958, 0.8159493, 1.164785, 2.038128, 2.537561, -" 99.95%", 906.9871, 0.006656286, 1.75089, 0.4667409, 0.3333224, 0.03122613, 0.0006233483, 0.1400143, 0.2728288, 0.08320858, 0.005829983, 0, 0, 0, 0.5542182, 0.9317575, 1.289136, 2.162081, 2.688027, -standard.errors -""," ofv"," CL"," V"," IVCL"," IVV"," SIGMA(1,1)"," seCL"," seV"," seIVCL"," seIVV"," seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)"," EI1"," EI2"," EI3"," EI4"," EI5", -"", 50.66377, 0.0003973276, 0.100456, 0.1020954, 0.04737561, 0.003770073,7.45629180141227e-05, 0.01627926, 0.05632929, 0.01098471, 0.0006162204, 0, 0, 0, 0.07782622, 0.1620375, 0.1739909, 0.1734328, 0.2105293, -medians -""," ofv"," CL"," V"," IVCL"," IVV"," SIGMA(1,1)"," seCL"," seV"," seIVCL"," seIVV"," seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)"," EI1"," EI2"," EI3"," EI4"," EI5", -"", 719.2322, 0.00531801, 1.38309, 0.103071, 0.153904, 0.0179656, 0.000338137, 0.0767338, 0.0799425, 0.039757, 0.00348835, NA, NA, NA, 0.250295, 0.466067, 0.877934, 1.50529, 1.9321, -percentile.confidence.intervals -""," ofv"," CL"," V"," IVCL"," IVV"," SIGMA(1,1)"," seCL"," seV"," seIVCL"," seIVV"," seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)"," EI1"," EI2"," EI3"," EI4"," EI5", -" 0.05%", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, -" 0.5%", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, -" 2.5%", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, -" 5%", 636.8837, 0.00483059, 1.212245, 0.01756105, 0.0855829, 0.01080279, 0.0002325275, 0.05080355, 0.007708945, 0.02052175, 0.00208432, NA, NA, NA, 0.127744, 0.266654, 0.5262875, 1.142915, 1.584225, -" 95%", 808.2429, 0.006283645, 1.63437, 0.3722615, 0.259584, 0.02432625, 0.000471855, 0.117444, 0.1889535, 0.06111175, 0.00452744, NA, NA, NA, 0.3703215, 0.8580085, 1.097555, 1.710205, 2.27561, -" 97.5%", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, -" 99.5%", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, -" 99.95%", NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, diff --git a/test/rplots/test_files/bootstrap/run1/rundir/included_individuals1.csv b/test/rplots/test_files/bootstrap/run1/rundir/included_individuals1.csv deleted file mode 100644 index 4660bbc3d..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/included_individuals1.csv +++ /dev/null @@ -1,30 +0,0 @@ -15,43,27,25,36,44,29,57,56,2,29,31,48,6,59,19,30,20,6,36,35,33,59,28,51,17,11,57,15,29,6,29,25,24,20,55,24,59,19,24,32,30,56,24,15,29,40,50,40,43,43,45,59,38,30,21,4,36,47 -26,7,28,23,30,53,21,14,35,47,45,8,38,38,31,33,17,13,31,36,44,21,9,3,39,5,37,11,47,56,9,21,23,12,56,41,58,32,21,40,45,54,17,30,6,27,39,13,19,36,58,30,43,35,53,58,7,20,54 -50,3,35,54,7,48,59,14,21,19,35,5,25,56,42,22,28,53,38,14,1,49,35,29,13,14,59,2,56,29,18,37,43,53,49,14,47,53,20,22,39,4,47,36,24,36,51,33,56,47,16,51,2,36,35,19,43,35,8 -15,51,36,18,38,33,49,32,57,31,22,44,11,29,7,14,20,16,27,13,1,41,45,19,59,33,46,34,16,30,52,11,4,4,25,34,10,57,36,50,27,27,43,50,29,7,55,56,19,20,54,5,8,52,56,35,26,5,32 -52,54,25,1,33,52,27,7,7,11,17,7,9,27,9,18,4,50,31,47,47,22,18,17,18,29,1,14,53,53,29,2,7,34,27,7,11,23,26,49,56,14,52,12,14,53,50,18,18,19,9,20,34,20,26,38,40,46,20 -38,31,37,19,42,16,41,3,6,33,42,26,8,46,8,16,41,40,16,20,53,7,43,23,42,52,8,30,35,6,37,38,50,11,8,36,40,53,53,31,13,43,11,5,29,40,2,12,43,35,38,18,38,16,32,2,21,3,47 -58,34,8,19,18,56,5,57,25,4,57,23,56,49,58,5,43,32,2,43,31,48,31,11,27,17,50,59,42,36,32,3,48,12,40,52,7,35,14,51,41,22,20,1,51,34,32,37,20,37,30,21,10,32,1,37,59,18,45 -54,14,12,37,12,26,5,3,19,6,17,18,21,54,3,55,21,3,52,16,24,10,50,31,40,21,30,46,17,58,44,58,44,48,18,57,40,21,46,50,45,50,50,16,30,38,29,18,38,21,36,36,1,11,58,27,39,26,21 -18,35,16,20,37,9,5,43,17,36,6,8,30,11,29,38,43,20,57,35,45,44,48,51,35,36,7,10,18,3,41,53,49,42,56,53,5,35,24,16,37,21,49,41,54,48,58,55,50,12,20,25,24,29,37,48,31,31,6 -53,9,12,16,29,27,12,7,35,50,55,32,59,37,4,24,6,36,50,5,46,52,23,27,15,23,19,15,51,41,41,47,40,40,36,34,25,49,38,48,43,34,15,50,34,45,21,27,23,50,33,7,23,39,14,52,20,55,40 -48,57,55,58,54,5,38,1,1,5,36,34,17,59,23,56,41,14,49,51,48,21,6,8,15,56,4,8,39,47,58,44,51,31,8,16,26,9,33,16,1,24,48,13,28,38,49,20,59,8,13,35,46,34,35,48,22,32,3 -2,52,1,23,55,8,55,35,36,15,1,19,44,7,46,47,18,42,4,59,51,47,54,30,48,14,52,36,28,19,22,2,52,20,4,15,34,19,2,29,22,53,2,40,1,59,52,21,22,16,45,2,34,35,10,43,31,21,42 -35,35,49,10,49,53,32,29,7,3,26,7,9,12,46,49,13,56,45,3,41,55,22,9,15,43,53,19,49,9,33,2,1,2,55,55,27,49,58,28,49,49,55,18,15,26,46,27,4,32,10,54,12,25,35,59,43,29,32 -20,48,50,13,7,3,53,49,32,50,17,23,46,34,44,39,46,17,35,21,12,47,17,25,57,36,29,53,11,41,34,16,7,23,4,22,21,33,36,12,47,29,30,52,53,48,22,29,38,13,19,31,31,3,46,58,5,48,35 -55,42,9,55,14,6,35,54,13,24,35,52,37,52,33,50,43,25,19,58,26,4,2,29,32,57,58,38,35,47,12,43,12,31,3,6,21,24,33,42,3,37,53,28,2,32,19,49,23,28,13,57,31,48,38,7,3,35,15 -8,16,36,11,23,25,35,48,2,14,47,58,5,41,52,46,6,32,44,39,29,33,27,55,11,21,55,10,53,52,56,34,58,30,49,55,58,19,39,38,17,15,59,10,44,34,3,59,24,54,40,3,36,30,51,15,36,41,19 -55,16,18,1,33,24,26,25,51,32,34,54,47,8,30,57,33,20,13,25,45,36,28,23,25,24,40,2,57,30,54,35,44,49,51,49,4,24,13,32,20,15,30,6,12,26,24,41,27,5,8,47,52,26,23,58,50,50,6 -53,43,43,44,3,8,51,17,49,44,11,40,9,43,19,28,20,2,16,53,44,41,40,56,4,35,8,31,42,27,45,16,50,29,41,29,12,10,12,43,24,27,31,37,2,7,3,36,2,9,25,28,15,3,18,13,59,10,52 -57,35,59,30,50,58,59,58,29,24,59,1,47,1,10,5,46,36,47,52,49,44,53,27,10,53,25,43,19,33,32,53,17,52,1,23,11,10,27,1,18,50,46,13,13,57,37,51,38,7,10,49,36,10,18,20,18,6,55 -58,22,59,5,5,9,35,12,26,55,39,59,5,30,26,58,13,46,28,37,7,25,11,51,49,4,2,44,54,10,32,7,48,56,36,11,23,54,56,55,28,9,14,11,55,56,25,37,38,15,51,13,47,22,17,33,16,59,35 -27,21,15,10,51,38,18,38,46,55,20,53,13,42,35,4,19,28,38,25,11,28,33,55,16,14,11,9,25,44,8,40,56,9,30,41,37,28,16,24,19,29,39,23,9,21,21,23,26,22,41,36,13,38,54,53,31,19,41 -45,9,20,2,1,30,12,35,4,18,18,40,53,1,58,33,15,37,19,36,22,53,6,34,2,42,4,53,20,51,6,28,41,46,29,33,19,43,42,22,7,33,59,5,10,52,19,37,3,40,16,17,54,43,46,6,50,2,6 -52,34,39,59,5,9,15,30,14,19,19,37,32,20,20,35,10,24,1,31,28,19,9,30,13,24,25,24,41,37,40,46,47,47,44,53,54,4,8,22,2,53,6,54,33,45,57,8,56,42,52,12,17,42,20,50,58,12,17 -4,11,57,56,23,51,40,19,19,59,5,24,34,51,4,22,10,29,15,1,25,50,3,48,56,27,53,35,29,4,43,12,9,46,44,25,55,27,1,15,53,22,34,39,53,13,25,51,27,3,19,29,22,45,16,36,3,36,44 -33,30,32,54,42,22,25,40,43,27,51,13,15,23,55,10,31,19,46,36,12,16,31,59,21,22,49,30,1,20,44,39,49,50,17,15,5,28,53,15,48,47,34,40,18,50,13,54,59,42,27,50,39,55,3,11,48,9,18 -38,32,22,17,34,6,6,7,51,52,22,10,34,25,44,54,41,1,49,13,13,28,17,38,2,37,19,56,7,49,55,17,35,24,34,42,9,22,22,39,21,34,46,6,51,37,51,13,54,6,26,20,56,44,37,14,8,32,48 -39,4,55,22,50,2,53,50,49,47,58,35,35,58,1,53,59,49,56,22,16,9,2,28,40,46,21,11,15,57,12,39,44,41,57,25,35,49,38,45,58,6,16,40,30,42,5,51,4,1,5,59,8,9,5,1,5,44,4 -45,5,4,36,4,46,59,15,1,4,22,37,58,32,50,15,24,28,7,52,42,36,26,42,55,2,20,17,14,33,53,13,35,53,9,40,34,28,39,46,4,30,59,34,21,46,37,52,8,15,9,25,17,25,24,4,34,5,21 -58,56,17,37,23,33,21,10,27,22,29,53,55,35,4,10,28,16,30,1,42,39,36,49,56,6,31,45,50,22,10,12,59,5,38,17,29,37,37,48,30,16,28,10,56,1,38,53,53,5,36,46,39,58,39,9,13,55,32 -52,50,17,57,12,38,49,14,17,36,7,54,52,39,43,43,7,18,20,9,33,5,16,58,43,11,43,17,39,59,51,2,36,46,3,10,46,17,6,46,21,2,50,13,3,38,31,38,2,15,5,16,16,7,5,5,58,4,9 diff --git a/test/rplots/test_files/bootstrap/run1/rundir/included_keys1.csv b/test/rplots/test_files/bootstrap/run1/rundir/included_keys1.csv deleted file mode 100644 index 3a56882df..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/included_keys1.csv +++ /dev/null @@ -1,30 +0,0 @@ -14,42,26,24,35,43,28,56,55,1,28,30,47,5,58,18,29,19,5,35,34,32,58,27,50,16,10,56,14,28,5,28,24,23,19,54,23,58,18,23,31,29,55,23,14,28,39,49,39,42,42,44,58,37,29,20,3,35,46 -25,6,27,22,29,52,20,13,34,46,44,7,37,37,30,32,16,12,30,35,43,20,8,2,38,4,36,10,46,55,8,20,22,11,55,40,57,31,20,39,44,53,16,29,5,26,38,12,18,35,57,29,42,34,52,57,6,19,53 -49,2,34,53,6,47,58,13,20,18,34,4,24,55,41,21,27,52,37,13,0,48,34,28,12,13,58,1,55,28,17,36,42,52,48,13,46,52,19,21,38,3,46,35,23,35,50,32,55,46,15,50,1,35,34,18,42,34,7 -14,50,35,17,37,32,48,31,56,30,21,43,10,28,6,13,19,15,26,12,0,40,44,18,58,32,45,33,15,29,51,10,3,3,24,33,9,56,35,49,26,26,42,49,28,6,54,55,18,19,53,4,7,51,55,34,25,4,31 -51,53,24,0,32,51,26,6,6,10,16,6,8,26,8,17,3,49,30,46,46,21,17,16,17,28,0,13,52,52,28,1,6,33,26,6,10,22,25,48,55,13,51,11,13,52,49,17,17,18,8,19,33,19,25,37,39,45,19 -37,30,36,18,41,15,40,2,5,32,41,25,7,45,7,15,40,39,15,19,52,6,42,22,41,51,7,29,34,5,36,37,49,10,7,35,39,52,52,30,12,42,10,4,28,39,1,11,42,34,37,17,37,15,31,1,20,2,46 -57,33,7,18,17,55,4,56,24,3,56,22,55,48,57,4,42,31,1,42,30,47,30,10,26,16,49,58,41,35,31,2,47,11,39,51,6,34,13,50,40,21,19,0,50,33,31,36,19,36,29,20,9,31,0,36,58,17,44 -53,13,11,36,11,25,4,2,18,5,16,17,20,53,2,54,20,2,51,15,23,9,49,30,39,20,29,45,16,57,43,57,43,47,17,56,39,20,45,49,44,49,49,15,29,37,28,17,37,20,35,35,0,10,57,26,38,25,20 -17,34,15,19,36,8,4,42,16,35,5,7,29,10,28,37,42,19,56,34,44,43,47,50,34,35,6,9,17,2,40,52,48,41,55,52,4,34,23,15,36,20,48,40,53,47,57,54,49,11,19,24,23,28,36,47,30,30,5 -52,8,11,15,28,26,11,6,34,49,54,31,58,36,3,23,5,35,49,4,45,51,22,26,14,22,18,14,50,40,40,46,39,39,35,33,24,48,37,47,42,33,14,49,33,44,20,26,22,49,32,6,22,38,13,51,19,54,39 -47,56,54,57,53,4,37,0,0,4,35,33,16,58,22,55,40,13,48,50,47,20,5,7,14,55,3,7,38,46,57,43,50,30,7,15,25,8,32,15,0,23,47,12,27,37,48,19,58,7,12,34,45,33,34,47,21,31,2 -1,51,0,22,54,7,54,34,35,14,0,18,43,6,45,46,17,41,3,58,50,46,53,29,47,13,51,35,27,18,21,1,51,19,3,14,33,18,1,28,21,52,1,39,0,58,51,20,21,15,44,1,33,34,9,42,30,20,41 -34,34,48,9,48,52,31,28,6,2,25,6,8,11,45,48,12,55,44,2,40,54,21,8,14,42,52,18,48,8,32,1,0,1,54,54,26,48,57,27,48,48,54,17,14,25,45,26,3,31,9,53,11,24,34,58,42,28,31 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-51,49,16,56,11,37,48,13,16,35,6,53,51,38,42,42,6,17,19,8,32,4,15,57,42,10,42,16,38,58,50,1,35,45,2,9,45,16,5,45,20,1,49,12,2,37,30,37,1,14,4,15,15,6,4,4,57,3,8 diff --git a/test/rplots/test_files/bootstrap/run1/rundir/raw_results_dofv.csv b/test/rplots/test_files/bootstrap/run1/rundir/raw_results_dofv.csv deleted file mode 100644 index b4f4bcb66..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/raw_results_dofv.csv +++ /dev/null @@ -1,32 +0,0 @@ -"model","problem","bs_data_id","subproblem","covariance_step_run","minimization_successful","covariance_step_successful","covariance_step_warnings","estimate_near_boundary","rounding_errors","zero_gradients","final_zero_gradients","hessian_reset","s_matrix_singular","significant_digits","condition_number","est_methods","model_run_time","subprob_est_time","subprob_cov_time","ofv","deltaofv","CL","V","IVCL","IVV","SIGMA(1,1)","seCL","seV","seIVCL","seIVV","seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)","EI1","EI2","EI3","EI4","EI5" -input,1,original,1,1,1,1,0,0,0,0,0,0,0,3.6,6.69262,FOCE,0:00:01,0.51,0.31,740.278025469421,0,0.00534888,1.42034,0.130796,0.177433,0.0188207,0.000377999,0.0864474,0.0874773,0.0470634,0.00380231,NA,NA,NA,0.298131,0.398573,0.716619,1.5914,1.99528 -1,1,1,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,743.18360953522,2.90558406579851,0.00524506,1.38309,0.171617,0.206534,0.0216021,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA 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-1,22,22,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,771.249939858677,30.971914389256,0.00537073,1.31287,0.0311365,0.09714,0.0151163,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,23,23,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,883.515089086153,143.237063616732,0.00530161,1.51384,1.30796e-05,0.253069,0.0166056,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,24,24,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,753.702378762383,13.4243532929623,0.00498649,1.30655,0.187368,0.0940843,0.0187658,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,25,25,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,744.650777214385,4.37275174496381,0.00536987,1.41671,0.243309,0.132608,0.0203168,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,26,26,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,742.041346677622,1.76332120820064,0.00495907,1.39042,0.11014,0.16869,0.0197018,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,27,27,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,763.892422534569,23.6143970651475,0.00531801,1.44859,0.0744224,0.106913,0.0119674,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,28,28,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,751.643268129432,11.3652426600112,0.00515854,1.46023,0.050457,0.229203,0.0157063,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,29,29,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,747.563940757127,7.28591528770562,0.00562318,1.40297,0.171621,0.153904,0.0126233,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -1,30,30,1,0,0,0,0,0,0,NA,NA,NA,0,NA,NA,FOCE,0:00:01,0,0,783.175336582443,42.8973111130218,0.00568008,1.22095,0.0627127,0.0770815,0.0116348,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA diff --git a/test/rplots/test_files/bootstrap/run1/rundir/raw_results_run1.csv b/test/rplots/test_files/bootstrap/run1/rundir/raw_results_run1.csv deleted file mode 100644 index dbf3d4eed..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/raw_results_run1.csv +++ /dev/null @@ -1,32 +0,0 @@ -"model","problem","subproblem","covariance_step_run","minimization_successful","covariance_step_successful","covariance_step_warnings","estimate_near_boundary","rounding_errors","zero_gradients","final_zero_gradients","hessian_reset","s_matrix_singular","significant_digits","condition_number","est_methods","model_run_time","subprob_est_time","subprob_cov_time","ofv","CL","V","IVCL","IVV","SIGMA(1,1)","seCL","seV","seIVCL","seIVV","seSIGMA(1,1)","shrinkage_eta1(%)","shrinkage_eta2(%)","shrinkage_iwres(%)","EI1","EI2","EI3","EI4","EI5" -0,1,1,1,1,1,0,0,0,0,0,0,0,3.6,6.69262,FOCE,0:00:01,0.51,0.31,740.278025469421,0.00534888,1.42034,0.130796,0.177433,0.0188207,0.000377999,0.0864474,0.0874773,0.0470634,0.00380231,NA,NA,NA,0.298131,0.398573,0.716619,1.5914,1.99528 -1,1,1,1,1,1,0,0,0,0,0,0,0,3.2,10.9969,FOCE,0:00:03,0.9,0.76,725.099791945826,0.00524506,1.38309,0.171617,0.206534,0.0216021,0.000456973,0.0896066,0.10187,0.0574592,0.00418029,NA,NA,NA,0.182767,0.466067,0.688375,1.65292,2.00987 -2,1,1,1,1,1,0,0,0,0,0,0,0,3.8,5.20179,FOCE,0:00:03,0.98,0.71,662.232675856616,0.00622842,1.46969,0.0570616,0.164926,0.00997077,0.000291463,0.0798235,0.015015,0.0384986,0.00218316,NA,NA,NA,0.350181,0.519066,1.05384,1.25534,1.82157 -3,1,1,1,1,1,0,0,0,0,0,0,0,3.6,8.02381,FOCE,0:00:03,0.95,0.75,735.829749972151,0.00530712,1.30626,0.134222,0.152226,0.0197339,0.000434721,0.0743694,0.0900099,0.0382372,0.00332308,NA,NA,NA,0.234642,0.477906,0.899448,1.50529,1.88272 -4,1,1,1,1,1,0,0,0,0,0,0,0,3.7,4.84361,FOCE,0:00:03,1.18,0.62,671.917494005367,0.00559881,1.30629,0.0354672,0.17279,0.0134386,0.000272864,0.0767338,0.0129424,0.047232,0.00308582,NA,NA,NA,0.323154,0.825408,1.0188,1.2674,1.56523 -5,1,1,1,1,1,0,0,0,0,0,0,0,3.6,5.42722,FOCE,0:00:03,0.99,0.69,702.67795535378,0.00573548,1.20354,0.0153914,0.10854,0.0173236,0.000211866,0.0587808,0.00477859,0.0308746,0.00315536,NA,NA,NA,0.333104,0.356787,1.05358,1.44869,1.80783 -6,1,1,1,1,1,0,0,0,0,0,0,0,4.3,9.48782,FOCE,0:00:02,1.12,0.68,663.39903834059,0.00593727,1.46774,0.0212734,0.191579,0.0164908,0.000320524,0.0939224,0.0113617,0.0505841,0.00300957,NA,NA,NA,0.226954,0.355951,0.560642,1.70316,2.1533 -7,1,1,1,1,1,0,0,0,0,0,0,0,3.1,10.9024,FOCE,0:00:02,1.32,0.55,786.713900395357,0.00499474,1.37769,0.194959,0.227561,0.0208426,0.000431754,0.0951142,0.110331,0.0637702,0.00364669,NA,NA,NA,0.20372,0.263123,0.602318,1.7098,2.22104 -8,1,1,1,1,1,0,0,0,0,0,0,0,4.1,14.0813,FOCE,0:00:02,1.17,0.54,765.40245650721,0.00633887,1.35176,0.103071,0.100326,0.0171265,0.000296387,0.0624359,0.0799425,0.0280264,0.00322041,NA,NA,NA,0.141263,0.592431,1.02956,1.24759,1.98916 -9,1,1,1,1,1,0,0,0,0,0,0,0,3.6,6.00765,FOCE,0:00:03,1.18,0.77,787.4620406167,0.00529991,1.35352,0.33005,0.119562,0.0219961,0.00040121,0.0744483,0.199667,0.0371353,0.00348921,NA,NA,NA,0.325986,0.370995,0.911453,1.43315,1.95841 -10,1,1,1,1,1,0,0,0,0,0,0,0,4.7,6.31555,FOCE,0:00:03,1.13,0.78,764.960887659202,0.00537886,1.40331,0.117997,0.168821,0.0172236,0.000338137,0.0813293,0.0852383,0.0421702,0.00339613,NA,NA,NA,0.307358,0.381374,0.759691,1.61044,1.94114 -11,1,1,1,1,1,0,0,0,0,0,0,0,4,17.0211,FOCE,0:00:03,1.33,0.66,800.050289429056,0.00476723,1.36577,0.389494,0.154044,0.0196196,0.000454442,0.0801862,0.170544,0.0427071,0.00343441,NA,NA,NA,0.129844,0.296006,0.71828,1.64578,2.21008 -12,1,1,1,1,1,0,0,0,0,0,0,0,3.6,15.3776,FOCE,0:00:02,0.89,0.79,679.674406467018,0.00522911,1.31604,0.112189,0.147253,0.017873,0.00040543,0.0741106,0.0813622,0.0392382,0.00315719,NA,NA,NA,0.125644,0.49142,0.877934,1.5729,1.9321 -13,1,1,1,1,1,0,0,0,0,0,0,0,3.5,8.85378,FOCE,0:00:02,0.91,0.61,640.476098418999,0.0051966,1.46723,0.0197307,0.173038,0.0121175,0.000253189,0.0868009,0.0106393,0.0525786,0.0032006,NA,NA,NA,0.200406,0.458644,0.976119,1.59048,1.77435 -14,1,1,1,1,1,0,0,0,0,0,0,0,4.1,9.61303,FOCE,0:00:03,1.02,0.77,740.677560303602,0.00516221,1.36667,0.355029,0.120475,0.0197308,0.00048497,0.0685651,0.17824,0.0335025,0.00363813,NA,NA,NA,0.22268,0.307755,0.759805,1.56913,2.14063 -15,1,1,1,1,1,0,0,0,0,0,0,0,4.3,8.75759,FOCE,0:00:03,1.04,0.56,757.287803702978,0.00515457,1.58186,0.102079,0.257111,0.022923,0.000348588,0.115093,0.090318,0.0557246,0.00431206,NA,NA,NA,0.25681,0.321556,0.513825,1.65877,2.24904 -16,1,1,1,1,1,0,0,0,0,0,0,0,3.1,6.40537,FOCE,0:00:03,0.96,0.68,731.239681126021,0.00603616,1.42706,0.145263,0.130216,0.0192612,0.000396509,0.0724953,0.0957784,0.0373949,0.00357323,NA,NA,NA,0.323634,0.462955,0.775571,1.36484,2.073 -17,1,1,1,1,1,0,0,0,0,0,0,0,4,5.31315,FOCE,0:00:02,1.11,0.75,816.435584384442,0.00530262,1.68688,0.0390042,0.262057,0.0257295,0.00033227,0.119795,0.0168606,0.0491892,0.00459553,NA,NA,NA,0.325099,0.519367,1.14127,1.28696,1.7273 -18,1,1,1,1,1,0,0,0,0,0,0,0,3.2,4.27935,FOCE,0:00:02,0.72,0.68,650.94913475559,0.00538261,1.29339,0.0306075,0.137056,0.0137474,0.000256081,0.0685217,0.0115048,0.039757,0.00309436,NA,NA,NA,0.37953,0.852606,1.0378,1.10592,1.62414 -19,1,1,1,1,1,0,0,0,0,0,0,0,4.2,9.15771,FOCE,0:00:02,1.09,0.58,699.158611601176,0.00588031,1.34241,0.0334885,0.135964,0.0179656,0.000318678,0.0730703,0.0118686,0.0397413,0.00357564,NA,NA,NA,0.201931,0.574202,0.804209,1.57044,1.84922 -20,1,1,1,1,1,0,0,0,0,0,0,0,4.9,6.66566,FOCE,0:00:02,1.17,0.59,713.693072488066,0.00489395,1.43836,0.14496,0.168299,0.0182085,0.000386218,0.0833665,0.0872318,0.0406838,0.00429659,NA,NA,NA,0.300172,0.52528,0.770553,1.40315,2.00084 -21,1,1,1,1,1,0,0,0,0,0,0,0,3.7,5.51764,FOCE,0:00:02,0.5,0.48,719.232218374652,0.00581789,1.51171,0.0488395,0.155841,0.0196583,0.000303643,0.0870654,0.0132439,0.0394356,0.00435537,NA,NA,NA,0.298737,0.863411,1.00962,1.17991,1.64832 -22,1,1,1,1,1,0,0,0,0,0,0,0,3.4,4.89316,FOCE,0:00:02,0.92,0.31,633.291382663747,0.00537073,1.31287,0.0311365,0.09714,0.0151163,0.000287377,0.0608957,0.0111104,0.0328712,0.00286194,NA,NA,NA,0.340852,0.417115,1.03213,1.54206,1.66784 -23,1,1,1,1,0,0,1,0,1,1,0,0,4.5,NA,FOCE,0:00:02,0.89,0,715.968635674594,0.00530161,1.51384,1.30796e-05,0.253069,0.0166056,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA,NA -24,1,1,1,1,1,0,0,0,0,0,0,0,4.2,8.19376,FOCE,0:00:02,1.12,0.39,698.789335394237,0.00498649,1.30655,0.187368,0.0940843,0.0187658,0.000420509,0.055548,0.109166,0.0280017,0.00348835,NA,NA,NA,0.232559,0.563995,0.961256,1.33666,1.90553 -25,1,1,1,1,1,0,0,0,0,0,0,0,4.6,10.5057,FOCE,0:00:02,0.51,0.62,746.434865907428,0.00536987,1.41671,0.243309,0.132608,0.0203168,0.00045874,0.0780242,0.123595,0.0418904,0.00445935,NA,NA,NA,0.20105,0.270185,0.705978,1.71061,2.11218 -26,1,1,1,1,1,0,0,0,0,0,0,0,4.9,8.84488,FOCE,0:00:03,1.06,0.79,760.391757731826,0.00495907,1.39042,0.11014,0.16869,0.0197018,0.000368139,0.0830574,0.0751014,0.0551249,0.00349002,NA,NA,NA,0.250295,0.328325,0.53875,1.6688,2.21383 -27,1,1,1,1,1,0,0,0,0,0,0,0,3.2,4.43967,FOCE,0:00:02,1.09,0.75,653.315807416791,0.00531801,1.44859,0.0744224,0.106913,0.0119674,0.000310775,0.0627657,0.0227098,0.0265969,0.00313281,NA,NA,NA,0.361113,0.631602,1.03313,1.37094,1.60322 -28,1,1,1,1,1,0,0,0,0,0,0,0,4.9,11.1056,FOCE,0:00:02,0.56,0.61,719.52025200982,0.00515854,1.46023,0.050457,0.229203,0.0157063,0.000275174,0.0992176,0.023622,0.0584533,0.00412022,NA,NA,NA,0.172462,0.466474,0.826598,1.61917,1.9153 -29,1,1,1,1,1,0,0,0,0,0,0,0,4.3,16.7828,FOCE,0:00:01,0.54,0.41,669.11812906886,0.00562318,1.40297,0.171621,0.153904,0.0126233,0.000408911,0.0758888,0.0905135,0.0450714,0.00349355,NA,NA,NA,0.137174,0.36272,0.811931,1.386,2.30218 -30,1,1,1,1,1,0,0,0,0,0,0,0,4.6,5.21509,FOCE,0:00:01,0.47,0.33,680.633946452214,0.00568008,1.22095,0.0627127,0.0770815,0.0116348,0.000269352,0.0460591,0.0202657,0.0144466,0.00198548,NA,NA,NA,0.349876,0.477347,0.925276,1.42286,1.82464 diff --git a/test/rplots/test_files/bootstrap/run1/rundir/raw_results_structure b/test/rplots/test_files/bootstrap/run1/rundir/raw_results_structure deleted file mode 100644 index fca3e8959..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/raw_results_structure +++ /dev/null @@ -1,73 +0,0 @@ -[1] -bs_sample=2,1 -burn_in_conv=17,0 -burn_in_iter=17,0 -condition_number=15,1 -covariance_step_run=4,1 -covariance_step_successful=6,1 -covariance_step_warnings=7,1 -deltaofv=21,1 -eigen=35,5 -est_methods=16,1 -estimate_near_boundary=8,1 -final_zero_gradients=11,1 -hessian_reset=12,1 -line_numbers=30 -minimization_successful=5,1 -model=0,1 -model_run_time=17,1 -nburn_set=17,0 -ofv=20,1 -omega=24,2 -problem=1,1 -rounding_errors=9,1 -s_matrix_singular=13,1 -seomega=29,2 -sesigma=31,1 -setheta=27,2 -shrinkage_eta=32,2 -shrinkage_iwres=34,1 -sigma=26,1 -significant_digits=14,1 -subprob_cov_time=19,1 -subprob_est_time=18,1 -subproblem=3,1 -theta=22,2 -zero_gradients=10,1 - -[input] -bs_sample=2,1 -burn_in_conv=17,0 -burn_in_iter=17,0 -condition_number=15,1 -covariance_step_run=4,1 -covariance_step_successful=6,1 -covariance_step_warnings=7,1 -deltaofv=21,1 -eigen=35,5 -est_methods=16,1 -estimate_near_boundary=8,1 -final_zero_gradients=11,1 -hessian_reset=12,1 -line_numbers=30 -minimization_successful=5,1 -model=0,1 -model_run_time=17,1 -nburn_set=17,0 -ofv=20,1 -omega=24,2 -problem=1,1 -rounding_errors=9,1 -s_matrix_singular=13,1 -seomega=29,2 -sesigma=31,1 -setheta=27,2 -shrinkage_eta=32,2 -shrinkage_iwres=34,1 -sigma=26,1 -significant_digits=14,1 -subprob_cov_time=19,1 -subprob_est_time=18,1 -subproblem=3,1 -theta=22,2 -zero_gradients=10,1 diff --git a/test/rplots/test_files/bootstrap/run1/rundir/sample_keys1.csv b/test/rplots/test_files/bootstrap/run1/rundir/sample_keys1.csv deleted file mode 100644 index d67d6c9b4..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/sample_keys1.csv +++ /dev/null @@ -1,30 +0,0 @@ -0,1,0,1,0,3,0,0,0,0,1,0,0,0,3,0,1,0,2,2,1,0,0,4,2,0,1,1,5,3,1,1,1,0,1,3,0,1,0,2,0,0,3,1,1,0,1,1,0,1,1,0,0,0,1,2,2,0,4 -0,0,1,0,1,1,2,1,2,0,1,1,2,1,0,0,2,0,1,1,4,0,2,0,0,1,1,1,0,3,2,1,1,0,2,2,1,2,2,1,1,0,1,1,2,0,2,0,0,0,0,0,2,2,0,2,0,3,0 -1,2,1,1,1,0,1,1,0,0,0,0,1,4,0,1,0,1,2,1,1,2,0,1,1,0,0,1,2,0,0,0,1,0,5,3,1,1,1,0,0,1,2,0,0,0,3,1,2,1,2,0,3,1,0,3,0,0,2 -1,0,0,2,2,0,2,1,0,1,2,0,1,1,1,2,0,1,2,2,0,1,0,0,1,1,3,0,2,1,1,2,2,2,1,2,0,1,0,0,1,0,1,1,1,1,0,0,1,2,1,2,0,1,1,2,2,0,1 -2,1,0,1,0,0,5,0,3,0,2,1,0,3,0,0,2,5,1,3,0,1,1,0,1,2,3,0,2,0,1,0,1,2,0,0,0,1,0,1,0,0,0,0,0,1,2,0,1,2,0,3,3,1,0,1,0,0,0 -0,2,2,0,1,2,1,4,0,0,2,1,1,0,0,4,0,1,1,1,1,0,1,0,0,1,0,0,1,1,2,1,1,0,2,1,2,4,0,3,2,3,3,0,0,1,1,0,0,1,0,1,3,0,0,0,0,0,0 -2,1,1,1,2,0,1,1,0,1,1,1,0,1,0,0,1,2,1,2,1,1,1,0,1,0,1,0,0,1,2,4,0,2,1,1,3,0,0,1,1,1,2,0,1,0,0,2,1,1,2,1,0,0,0,2,2,2,2 -1,0,3,0,1,1,0,0,0,1,1,2,0,1,0,2,2,3,1,0,6,0,0,1,0,2,1,0,1,2,1,0,0,0,0,2,1,2,1,2,0,0,0,2,1,2,0,1,0,4,0,1,0,2,1,0,1,3,0 -0,0,1,0,2,2,1,1,1,1,1,1,0,0,0,2,1,2,0,3,1,0,0,2,1,0,0,0,2,1,2,0,0,0,4,2,3,1,0,0,2,1,2,1,1,0,0,3,2,1,1,0,2,1,1,1,1,1,0 -0,0,0,1,1,1,2,0,1,0,0,2,0,1,3,1,0,0,1,1,1,0,4,1,1,0,3,0,1,0,0,1,1,3,1,2,1,1,1,3,2,0,1,0,1,1,1,1,1,4,1,2,1,0,2,0,0,0,1 -3,0,1,1,2,1,0,4,1,0,0,0,2,1,1,2,1,0,0,1,1,1,1,1,0,1,0,1,0,0,1,1,1,2,2,1,0,2,1,0,1,0,0,1,0,1,1,4,2,0,2,0,0,1,1,2,1,2,2 -3,5,0,2,0,0,1,1,0,1,0,0,0,1,2,1,0,1,3,1,2,3,1,0,0,0,0,1,1,1,1,0,0,2,2,2,0,0,0,1,0,2,1,1,1,1,2,1,0,0,1,4,1,1,2,0,0,0,2 -1,2,2,1,0,0,2,0,3,2,0,2,1,0,2,0,0,1,1,0,0,1,0,0,1,2,2,1,2,0,0,3,1,0,3,0,0,0,0,0,1,0,2,0,1,2,0,0,7,0,0,0,2,1,4,1,0,1,1 -0,0,2,1,1,0,2,0,0,0,1,2,2,0,0,1,3,0,1,1,2,2,2,0,1,0,0,0,3,1,2,1,1,2,2,2,0,1,1,0,1,0,0,1,0,3,2,3,1,2,0,1,3,0,0,0,1,1,0 -0,2,3,1,0,2,1,0,1,0,0,2,2,1,1,0,0,0,2,0,1,0,1,2,1,1,0,2,1,0,2,2,2,0,4,0,2,2,0,0,0,2,2,0,0,0,1,1,1,1,0,2,1,1,2,0,2,2,0 -0,1,2,0,1,1,0,1,0,2,2,0,0,1,2,1,1,0,2,0,1,0,1,1,1,0,1,0,1,2,0,1,1,2,1,3,0,1,2,1,2,0,0,2,0,1,1,1,1,0,1,2,1,1,3,1,0,3,2 -1,1,0,1,1,2,0,2,0,0,0,1,2,0,1,1,0,1,0,2,0,0,2,4,3,3,1,1,0,3,0,2,2,1,1,1,0,0,0,1,1,0,0,1,1,0,2,0,2,2,2,1,0,2,1,0,2,1,0 -0,3,3,1,0,0,1,2,2,2,1,2,1,0,1,2,1,1,1,1,0,0,0,1,1,0,2,2,2,0,2,0,0,0,1,1,1,0,0,2,2,1,4,3,1,0,0,0,1,1,1,1,2,0,0,1,0,0,1 -4,0,0,0,1,1,1,0,0,5,1,0,2,0,0,0,1,3,1,1,0,0,1,1,1,0,2,0,1,1,0,1,1,0,1,2,1,1,0,0,0,0,1,1,0,2,2,0,2,2,1,2,3,0,1,0,2,2,3 -0,1,0,1,3,0,2,0,2,1,3,1,2,1,1,1,1,0,0,0,0,2,1,0,2,2,0,2,0,1,0,1,1,0,2,1,2,1,1,0,0,0,0,1,0,1,1,1,1,0,2,0,0,2,3,3,0,2,3 -0,0,0,1,0,0,0,1,3,1,2,0,2,1,1,2,0,1,3,1,3,1,2,1,2,1,1,3,1,1,1,0,1,0,1,1,1,4,1,1,3,1,0,1,0,1,0,0,0,0,1,0,2,1,2,1,0,0,0 -2,3,1,2,1,4,1,0,1,1,0,1,0,0,1,1,1,2,3,2,0,2,0,0,0,0,0,1,1,1,0,0,3,1,1,1,2,0,0,2,1,2,2,0,1,2,0,0,0,1,1,1,3,1,0,0,0,1,1 -1,1,0,1,1,1,0,2,2,1,0,2,1,1,1,0,2,0,3,3,0,1,0,3,1,0,0,1,0,2,1,1,1,1,1,0,2,0,1,1,1,2,0,1,1,1,2,0,0,1,0,2,2,2,0,1,1,1,1 -2,0,3,3,1,0,0,0,1,1,1,1,1,0,2,1,0,0,3,0,0,3,1,1,3,0,3,0,3,0,0,0,0,2,1,2,0,0,1,1,0,0,1,2,1,1,0,1,0,1,3,0,3,0,1,2,1,0,1 -1,0,1,0,1,0,0,0,1,1,1,1,2,0,3,1,1,2,1,1,1,2,1,0,1,0,2,1,0,2,2,1,1,1,0,1,0,0,2,2,0,2,1,1,0,1,1,2,2,3,1,0,1,2,2,0,0,0,2 -1,1,0,0,0,4,2,1,1,1,0,0,3,1,0,0,3,0,1,1,1,4,0,1,1,1,0,1,0,0,0,2,0,4,1,0,3,2,1,0,1,1,0,2,0,1,0,1,2,0,3,1,0,2,1,2,0,0,0 -3,2,0,3,4,1,0,1,2,0,1,1,0,0,1,2,0,0,0,0,1,2,0,0,1,0,0,1,0,1,0,0,0,0,3,0,0,1,2,2,1,1,0,2,1,1,1,0,3,2,1,0,2,0,1,1,2,3,2 -1,1,0,5,2,0,1,1,2,0,0,0,1,1,3,0,2,0,0,1,2,1,0,2,2,1,0,2,0,1,0,1,1,3,1,2,2,0,1,1,0,2,0,0,1,3,0,0,0,1,0,2,2,0,1,0,0,1,2 -2,0,0,1,2,1,0,0,1,4,0,1,1,0,0,2,2,0,0,0,1,2,1,0,0,0,1,2,2,2,1,1,1,0,1,2,3,2,3,0,0,1,0,0,1,1,0,1,1,1,0,0,3,0,2,3,0,2,1 -0,3,2,1,4,1,3,0,2,1,1,1,1,1,1,3,4,1,0,1,1,0,0,0,0,0,0,0,0,0,1,0,1,0,0,2,0,3,2,0,0,0,4,0,0,3,0,0,1,2,1,2,0,1,0,0,1,2,1 diff --git a/test/rplots/test_files/bootstrap/run1/rundir/version_and_option_info.txt b/test/rplots/test_files/bootstrap/run1/rundir/version_and_option_info.txt deleted file mode 100644 index 214393eb0..000000000 --- a/test/rplots/test_files/bootstrap/run1/rundir/version_and_option_info.txt +++ /dev/null @@ -1,81 +0,0 @@ -PsN version: 4.6.7 -Run started: 2016-08-25 at 14:24 -version_and_option_info.txt is overwitten if the run is restarted later using option -directory. -The original file from the first call is saved as original_version_and_option_info.txt. - -Command: -/home/kajsa/kod-psn/PsN4/bin/bootstrap run1.mod -samples=30 -dofv -rplots=0 - -NONMEM: -/opt/nm730 - -Actual values optional bootstrap options (undefined values not listed): --allow_ignore_id=0 --copy_data=1 --dofv=1 --keep_tables=0 --mceta=0 --run_base_model=1 --samples=30 --skip_covariance_step_terminated=0 --skip_estimate_near_boundary=1 --skip_minimization_terminated=1 --skip_with_covstep_warnings=0 --type=bootstrap --update_inits=1 - -Actual values optional PsN (common) options (undefined values not listed): --abort_on_fail=0 --accepted_ofv_difference=0.5 --add_retries=0 --always_datafile_in_nmrun=0 --check_nmtran=0 --clean=1 --compress=0 --condition_number_limit=1000 --correlation_limit=0.85 --crash_restarts=4 --degree=0.1 --directory=/home/kajsa/kod-psn/devel/rplotstest/bootstrap_dir1/ --display_iterations=0 --handle_crashes=1 --handle_msfo=0 --large_omega_cv_limit=0.8 --large_sigma_cv_limit=0.8 --large_theta_cv_limit=0.5 --last_est_complete=0 --lsf_sleep=3 --min_retries=0 --missing_data_token=-99 --near_bound_sign_digits=2 --near_zero_boundary_limit=0.01 --nice=19 --nm_version=default --nmfe=1 --nmfe_options=-tprdefault -xmloff --nmqual=0 --nodes=0 --parafile=none --picky=0 --prepend_model_file_name=1 --quick_summarize=0 --retries=0 --rplots=0 --run_on_lsf=0 --run_on_sge=0 --run_on_slurm=0 --run_on_torque=0 --run_on_ud=0 --run_on_zink=0 --seed=800240 --send_email=0 --shrinkage=0 --sign_digits_off_diagonals=2 --significant_digits_accept=0 --standardised_output=0 --template_directory_rplots=/home/kajsa/kod-psn/PsN4/R-scripts/ --template_file_rplots=bootstrap_default.R --threads=4 --tweak_inits=1 --verbose=0 --zip=0 diff --git a/test/system/bootstrap.t b/test/system/bootstrap.t index 8171e0d81..9cdad3e77 100644 --- a/test/system/bootstrap.t +++ b/test/system/bootstrap.t @@ -34,11 +34,14 @@ $rc = $rc >> 8; ok ($rc == 0, "bootstrap 1a that should run ok"); ok (-e 'boot1a/PsN_bootstrap_plots.R','Creates R default file, not Rmd'); -$command = get_command('bootstrap') . " pheno5.mod -samples=10 -seed=12345 -dir=boot1 -dofv "; +$command = get_command('bootstrap') . " pheno5.mod -samples=10 -seed=12345 -dir=boot1 -dofv -rplots=2 "; $rc = system($command); $rc = $rc >> 8; +my %pdf_files_pages=($tempdir . 'boot1/PsN_bootstrap_plots.pdf' => 5); +includes::test_pdf_pages(\%pdf_files_pages); + ok ($rc == 0, "bootstrap 1b that should run ok"); $command = get_command('bootstrap') . " mox1.mod -samples=10 -stratify_on=DGRP -dir=boot2 -no-skip_minim -no-skip_est -clean=3";