Related
Vkkodali I'm writing a snakemake rule that uses multiple commands like this: rule RULE1:
input: 'path/to/input.file'
output: 'path/to/output.file'
shell: 'path/to/command1 {input} | /path/to/command2 | /path/to/command3 {output}'
If /path/to/command1it'
Vkkodali I'm writing a snakemake rule that uses multiple commands like this: rule RULE1:
input: 'path/to/input.file'
output: 'path/to/output.file'
shell: 'path/to/command1 {input} | /path/to/command2 | /path/to/command3 {output}'
If /path/to/command1it'
Vkkodali I'm writing a snakemake rule that uses multiple commands like this: rule RULE1:
input: 'path/to/input.file'
output: 'path/to/output.file'
shell: 'path/to/command1 {input} | /path/to/command2 | /path/to/command3 {output}'
If /path/to/command1it'
Dr. Strangelove Is there a shell command for outputting the absolute path of a specified program? I would like to know where the executable binary is. username Attempt to which lsdiscover the full path lsof the command
Dustin <?xml version="1.0" encoding="UTF-8"?>
<configuration debug="true">
<include resource="/opt/logback/logback_mobile.xml"></include>
</configuration>
Could not find resource corresponding to [/opt/logback/logback_mobile.xml] But the file does exist.
Dustin <?xml version="1.0" encoding="UTF-8"?>
<configuration debug="true">
<include resource="/opt/logback/logback_mobile.xml"></include>
</configuration>
Could not find resource corresponding to [/opt/logback/logback_mobile.xml] But the file does exist.
Dustin <?xml version="1.0" encoding="UTF-8"?>
<configuration debug="true">
<include resource="/opt/logback/logback_mobile.xml"></include>
</configuration>
Could not find resource corresponding to [/opt/logback/logback_mobile.xml] But the file does exist.
Dustin <?xml version="1.0" encoding="UTF-8"?>
<configuration debug="true">
<include resource="/opt/logback/logback_mobile.xml"></include>
</configuration>
Could not find resource corresponding to [/opt/logback/logback_mobile.xml] But the file does exist.
Dustin <?xml version="1.0" encoding="UTF-8"?>
<configuration debug="true">
<include resource="/opt/logback/logback_mobile.xml"></include>
</configuration>
Could not find resource corresponding to [/opt/logback/logback_mobile.xml] But the file does exist.
Elsonwx Now my case shows a short circuit like this I want to show the full absolute path in front. How to change it? dEIM Append the PS1variable \wand store it in your e.g..bash_profile one example export PS1="\u@\h \w> " Where \u- username \h- CPU name \w– C
Elsonwx Now my case shows a short circuit like this I want to show the full absolute path in front. How to change it? dEIM Append the PS1variable \wand store it in your e.g..bash_profile one example export PS1="\u@\h \w> " Where \u- username \h- CPU name \w– C
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
User 3224522 I would like to combine the two command lines into one to avoid intermediate files. workdir: "/path/to/workdir/"
rule all:
input:
"my.filtered.vcf.gz"
rule bedtools:
input:
invcf="/path/to/my.vcf.gz",
bedgz="/pat
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
Elysee # md5sum on fastq folder on cluster
rule md5sum_fastq_cluster:
input:
path_cluster+'/'+project_name+'/'+project_name+'.csv'
output:
path_cluster+'/'+project_name+'/'+'md5sum.txt'
shell:
"""find {path_cluster}/{p
tian I have the following in my settings.xml <profile>
<id>default</id>
<activation>
<activeByDefault>true></activeByDefault>
</activation>
<properties>
<eclipse.location>/Applications/eclipse</eclipse.location>
</properties>
</profile>
But
Filip Kraus I have used this code for SFTP Java upload package com.as400samplecode;
import java.io.File;
import java.io.FileInputStream;
import java.util.Properties;
import org.apache.commons.vfs2.FileObject;
import org.apache.commons.vfs2.FileSystemOptions;
Filip Kraus I have used this code for SFTP Java upload package com.as400samplecode;
import java.io.File;
import java.io.FileInputStream;
import java.util.Properties;
import org.apache.commons.vfs2.FileObject;
import org.apache.commons.vfs2.FileSystemOptions;
tian I have the following in my settings.xml <profile>
<id>default</id>
<activation>
<activeByDefault>true></activeByDefault>
</activation>
<properties>
<eclipse.location>/Applications/eclipse</eclipse.location>
</properties>
</profile>
But
dave559 I'm discussing with a colleague: Is it better practice, or even necessary, to explicitly specify the full path to a command in a shell script (e.g. install script, cronjob, etc.)? For example, a script user may have set up their system (or been hacked
Baswati Saha I am trying to install cupy 5.0.0. cupy5.0.0 requires a gcc version up to 7. My default gcc is gcc-9. I can't use conda environment. Also, I don't have sudo rights to change /usr/bin/gcc to point to gcc-7. Is there a way to pass the gcc path to th
Cui Pengfei When I try to run the shell command on the Mac it works as expected like this: scala> import scala.sys.process._
import scala.sys.process._
scala> """protractor --version"""!
warning: there were 1 feature warning(s); re-run with -feature for detai
A I am checking if a file exists with the findfollowing command - find ${pwd} | grep 'Test.*zip'
This command returns output with relative paths like − ./ReleaseKit/Installable/Test-5.2.0.11.zip
Is there a way to get the absolute path of the found file using
Shiva Sharma How to get absolute path using find command. Actually I am running the following script: find . -size +20M | while read a
do
i=$(echo $a | sed 's:/: :g')
echo $a;
j=($i)
fileName=${j[${#j[@]}-1]}
userName=${j[${#j[@]}-3]}
Shiva Sharma How to get absolute path using find command. Actually I am running the following script: find . -size +20M | while read a
do
i=$(echo $a | sed 's:/: :g')
echo $a;
j=($i)
fileName=${j[${#j[@]}-1]}
userName=${j[${#j[@]}-3]}