Mercurial > repos > mingchen0919 > rmarkdown_bdss_client
comparison bdss_client_render.R @ 8:32e9649f6939 draft
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_bdss_client commit ea6df97960569d247d64be1549aa90768c9786f4-dirty
| author | mingchen0919 |
|---|---|
| date | Wed, 11 Oct 2017 13:25:50 -0400 |
| parents | efb1938c3020 |
| children | 072568c2c96a |
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| 7:efb1938c3020 | 8:32e9649f6939 |
|---|---|
| 63 # substitute variables with user input values and place them in the working directory. | 63 # substitute variables with user input values and place them in the working directory. |
| 64 | 64 |
| 65 #----- 01 bdss_client_sra_se.Rmd ----------------------- | 65 #----- 01 bdss_client_sra_se.Rmd ----------------------- |
| 66 readLines(opt$bdss_client_sra_se_rmd) %>% | 66 readLines(opt$bdss_client_sra_se_rmd) %>% |
| 67 (function(x) { | 67 (function(x) { |
| 68 gsub('URLS', opt$sra_accession, x) | 68 gsub('URLS', opt$urls, x) |
| 69 }) %>% | 69 }) %>% |
| 70 (function(x) { | 70 (function(x) { |
| 71 gsub('ECHO', opt$echo, x) | 71 gsub('ECHO', opt$echo, x) |
| 72 }) %>% | 72 }) %>% |
| 73 (function(x) { | 73 (function(x) { |