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fixed cmd running script problem for logo plots

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This commit is contained in:
Tanushree Tunstall 2021-06-24 12:12:36 +01:00
parent 552c5e77aa
commit ca2315523d
14 changed files with 206 additions and 748 deletions
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53
scripts/plotting/running_plotting_scripts.txt
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@ -15,7 +15,7 @@ sources:
## stability_count_bp.R
outputs:
##5 svgs in the plotdir
## 5 svgs in the plotdir
note:
-f flag has default if not supplied
@ -23,10 +23,61 @@ sources:
./basic_barplots.R -d streptomycin -g gid -f /home/tanu/gid_test_file.csv
#-----------------------------------------------------------------------
#===================
# log_plot.R
#===================
./logo_plot.R -d streptomycin -g gid
sources:
## plotting_globals.R (previously dir.R)
## plotting_data.R
## combining_dfs_plotting.R
outputs: plotdir
## 1 svg of OR for all positions
note:
-fa flag has default if not supplied
-fb flag has default if not supplied
#========================
# ./logo_multiple_muts.R : FIXME,
Error in grid.Call(L_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : polygon edge not found (new)
https://stackoverflow.com/questions/34220883/error-in-grid-calll-textbounds-as-graphicsannotxlabel-xx-xy-polygon
#========================
./logo_multiple_muts.R -d streptomycin -g gid
sources:
## plotting_globals.R (previously dir.R)
## plotting_data.R
## combining_dfs_plotting.R
outputs: plotdir
## 1 svg of multiple muts for all positions > 1 muts (mutations + wt)
note:
-fa flag has default if not supplied
-fb flag has default if not supplied
#========================
# ./logo_combined.R : FIXME,
Error in grid.Call(L_textBounds, as.graphicsAnnot(x$label), x$x, x$y, : polygon edge not found (new)
https://stackoverflow.com/questions/34220883/error-in-grid-calll-textbounds-as-graphicsannotxlabel-xx-xy-polygon
#========================
sources:
## plotting_globals.R (previously dir.R)
## plotting_data.R
## combining_dfs_plotting.R
outputs: plotdir
## 1 svg combined of OR logo plot + mulitple_muts i.e output from
'logo_plots.R' + 'logo_multiple_muts.R'
note:
-fa flag has default if not supplied
-fb flag has default if not supplied
########################################################################
# TODO
Delete: dirs.R