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comparison 01_index_genome.Rmd @ 2:c04ef267c2c9 draft

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planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b-dirty
author mingchen0919
date Tue, 01 May 2018 11:13:34 -0400
parents c12e291895ff
children
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1:c8c0b708c221 2:c04ef267c2c9
7 7
8 ```{r setup, include=FALSE, warning=FALSE, message=FALSE} 8 ```{r setup, include=FALSE, warning=FALSE, message=FALSE}
9 knitr::opts_chunk$set(error = TRUE, echo = FALSE) 9 knitr::opts_chunk$set(error = TRUE, echo = FALSE)
10 ``` 10 ```
11 11
12 ## Job scripts
13 12
14 ```{bash, echo=FALSE} 13 ```{bash, echo=FALSE}
15 sh ${TOOL_INSTALL_DIR}/build-and-run-job-scripts.sh 14 sh ${TOOL_INSTALL_DIR}/build-and-run-job-scripts.sh
16 ``` 15 ```
17
18 ### Index genome
19 16
20 ```{r echo=FALSE,results='asis'} 17 ```{r echo=FALSE,results='asis'}
21 # display content of the job-script.sh file. 18 # display content of the job-script.sh file.
22 cat('```bash\n') 19 cat('```bash\n')
23 cat(readLines(paste0(Sys.getenv('REPORT_FILES_PATH'), '/index-genome.sh')), sep = '\n') 20 cat(readLines(paste0(Sys.getenv('REPORT_FILES_PATH'), '/index-genome.sh')), sep = '\n')