From github.com:OpenTreeOfLife/phylesystem-1
   b66c185..2ef00c9  master     -> origin/master
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/myeasylog.log
+ echo 'cleaning the inputs...'
+ echo -n 'inputcleaning '
+ date
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-input-cleaning.txt
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-input-cleaning-err.txt
+ make /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/exemplified_phylo/taxonomy.tre
+ echo 'creating the supertree...'
+ echo -n 'supertree '
+ date
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-supertree.txt
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-supertree-err.txt
+ make /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/labelled_supertree/labelled_supertree.tre
+ echo 'annotating the supertree...'
+ echo -n 'annotating '
+ date
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-annotations.txt
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-annotations-err.txt
+ make /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/annotated_supertree/annotations.json
+ echo 'make extra...'
+ echo -n 'extra '
+ date
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-extra.txt
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-extra-err.txt
+ make extra
+ echo 'running the assessments of the tree...'
+ echo -n 'assessments '
+ date
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-assessments.txt
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-assessments-err.txt
+ make /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/assessments/summary.json
+ echo -n 'make check '
+ date
+ make check
+ echo -n 'html '
+ date
+ echo 'creating documentation of the outputs...'
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-html.txt
+ rm -f /Users/karen/Documents/opentreeoflife/synthesis/treeoflife/opentree9.1/logs/log-of-html-err.txt
+ make html
+ exit