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Created with Raphaël 2.2.025Jun242017429May2221174Apr27Mar2126Feb221376230Jan2423221918Dec65430Nov15726Oct241221Sep2012116129Aug13Jul12105329Jun2316141312852131May2423221211104328Apr26230Mar2983127Feb161510330Jan21201613116419Dec84Oct1Sep30Aug29Jul28251816May109876524Mar23191528Feb2423211314Dec21Oct1224Sep27Jul139Jun24May21131211726Apr1916151425Mar23191825Feb42125Jan222013Dec130Nov282726197527Oct3Sep210Aug731Jul3097619Jun181128May27262019121141Apr12Feb30Jan2719Nov18Oct16151412111076414Sep6May3230Apr2819181716159543226Mar25add replicas to plotorder process by category and pipeline orderadd saving plot in fileplot with realtimeplot per condition, process in x time in yread all trace files and plot benchmark (to clean)add more fields to execution tracefix typo filter hicstuffclean functions to call hicstuff functionsorigin_hicstufforigin_hicstuffupdate build matrices function + delete manual sortingadd the pairtools command to output final pairs fileuse hicstuff repo for hicstuff functionsadd Dockerfile to get up to date hicstuff docker imageadd hicstuff as git submodulechange errorStrategyfix argument name for filter_pcr and cutsite_seed default valueadd hicstuff report statsupdate main schemadelete hicstuff_min_mapq and use min_qual insteadremove duplicated arguments between the two workflowsdelete build_matrix_cool_alt which is useless nowconnect hicstuff sub to cooler subworkflowfix cpu usage from hicstuff functionsupdate json and usage filesadd iterative and cutsite options to docsfix use of arima for cutsiteadd iterative mode for alignmentupdate schema for cutsitehicpro cutsite fail 137 : test with process highchange for process highcorrect sort for build matrix test fulltry correct writing in pre pairs filecorrect writecorrecttest change command cutsitetest sort cutsiteadd cutsite optioncorrect typo readmedocs add skip_plot_matrix flagadd hicstuff versions