The strand-specific data helps mostly in the cases where you have high gene density (some fungal genomes) and when transcripts slightly overlap from opposite strands. Adv Reply May 30th, 2012 #2 jonedney View Profile View Forum Posts Private Message Just Give Me the Beans! command line python script run on a file in different directory I have a script.py in /Users/admin/Desktop and I want to run this script on a file that is in /Us... Thanks! Source
Browse other questions tagged linux bash ssh debian or ask your own question. Thanks ! > > Fabrice > > Le 18/02/2011 15:21, Brian J Haas a √©crit : > > Hi Fabrice, >> >> Thanks for the info. Be a part of the beta today > http://p.sf.net/sfu/msIE9-sfdev2dev > _______________________________________________ > Inchworm-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/inchworm-users > -- -- Brian J. Would you please >> check ? >> >> Best regards, >> >> Fabrice Legeai >> AphidBase >> >> >> ------------------------------------------------------------------------------ >> The ultimate all-in-one performance toolkit: Intel(R) Parallel Studio XE: >>
Haas Manager, Bioinformatics Outreach, Genome Annotation and Analysis The Broad Institute http://broad.mit.edu/~bhaas Re: [Inchworm-users] compilation problem From: Brian J Haas
Its working now. I've been using the previous version of inchworm (inchworm_01-20-2011
Usage: bcftools view [options]
Mds-MacBook-Pro:reference ZILLURRAHMAN$ ls commands lambda_virus.3.bt2 lambdaout.4.bt2 eg2.bam lambda_virus.4.bt2 lambdaout.rev.1.bt2 eg2.raw.bcf lambda_virus.fa lambdaout.rev.2.bt2 eg2.sam lambda_virus.rev.1.bt2 nohup.out eg2.sorted.bam lambda_virus.rev.2.bt2 out egl.sam lambdaout.1.bt2 out.sam lambda_virus.1.bt2 lambdaout.2.bt2 lambda_virus.2.bt2 lambdaout.3.bt2 Mds-MacBook-Pro:reference ZILLURRAHMAN$ samtools mpileup -uf /example/reference/lambda_virus.fa http://www.pclinuxos.com/forum/index.php?topic=128985.30 But I can't do it using vi editor. Cannot Execute Binary File In Linux Error GenoMax10-19-2014, 01:23 [email protected]: Reboot your Mac before doing anything (e.g. Cannot Execute Binary File Mac Terms Privacy Opt Out Choices Advertise Get latest updates about Open Source Projects, Conferences and News.
Print a binary keyboard translation table to stdout use of special device files [no]exec (Dis)allow use of executable files [no]suid is command nohup file name substituted! 83, View binary files a this contact form Thanks everyone for your inputs! –superuser Jun 13 '12 at 4:18 add a comment| up vote 9 down vote Try to run it using ./executablefilename instead of using sh executablefilename. Now my files are Mds-MacBook-Pro:samtools-1.1 ZILLURRAHMAN$ ls AUTHORS bam_plbuf.c faidx.c ChangeLog.old bam_plbuf.h faidx.o INSTALL bam_plbuf.o htslib-1.1 LICENSE bam_plcmd.c kaln.c Makefile bam_plcmd.o kaln.h Makefile.mingw bam_reheader.c kaln.o NEWS bam_reheader.o kprobaln.c README bam_rmdup.c kprobaln.h Would you please to give me some suggestions by which I can measure the quality of the data. Cannot Execute Binary File Java
so the reason I couldn't unzip the zip file is that it's incomplete.. I'll have to investigate this further. Then from terminal type "cd desktop", and then "ls", to view all files on your desktop. http://bovbjerg.net/cannot-execute/usr-bin-ld-cannot-execute-binary-file.php Guess I shouldn't trust the results from the K > 31 runs... > In my various tests, I've found that 25mers work very well for > transcriptome data and going higher
Using "source" command allows you to read the profile without having to log out then in. Java Cannot Execute Binary File: Exec Format Error Note: I am still not sure how you managed to get your system into this state. How to make bowtie available via PATH settings ?
I suppose a better starting point would be, what is the output of echo $PATH ? (edit: the export command is a way to define an environment variable in bash.) –Darth To start a new thread: http://seqanswers.com/forums/showpost.php?p=153769&postcount=9 lonesome_forager11-11-2014, 02:29 AMHello, I'm also having trouble [email protected] Message: previous - nextMonth: November 2014 Re: [trinity-users] Exe GNU/Linux, Jessie, no-systemd From: Neo Futur You have to download and compile bcftools from here: http://sourceforge.net/projects/samtools/files/samtools/1.1/bcftools-1.1.tar.bz2/download zillur11-02-2014, 07:22 PMThank you very much. Bash Cannot Execute Binary File Ubuntu Is there a particular reason for this limit? 2.
I did update the code to rectify the error, and I took the > Werror out of the compilation. > > Could you do me a big favor and see if GenoMax10-15-2014, 08:25 AMWhat is $BT2_HOME set to? GenoMax09-26-2014, 09:27 AMYou are trying to run the program from the current folder which is the wrong folder (did you read about the concept of relative paths at the Korf UNIX http://bovbjerg.net/cannot-execute/usr-bin-ssh-cannot-execute-binary-file.php GenoMax11-01-2013, 08:47 AMI'm also trying to install bowtie.
wrote: >>> >>> On my own followup, below is the installation log, indicating >>> something major >>> is seriously amiss with installing jessie-tde live isos on a >>> virtualbox vm. >>> Similar posts • Search » How Can I Use The Sff_Extract In Mira3 For Example Copy A File From Bin To User Directory After following the instructions you gave me and I have installed a program for astrophysics. Normally, it should look like !/bin/bash or /usr/bin/perl, or whatever is intended to use for executing it.
How can I fix this? vBulletin ©2000 - 2016, Jelsoft Enterprises Ltd. Our animal model (a squid) has no sequenced genome, so I'm curious about how well inchworm assembles contigs without mapping the illumina reads to a genome. Collect, index and harness all the fast moving IT >> data >> generated by your applications, servers and devices whether physical, >> virtual >> or in the cloud.
Typically the cause is running an executable on the wrong architecture - if you try to run x86 executables on an ARM CPU, this message comes up. GenoMax11-02-2014, 03:27 PMFrom where I can get the "bcftools" files? My strategy so far has been to run inchworm on the raw data with a range of >> Kmer sizes, from 25-37, concatenate those outputs and reassemble using the >> '--reassembleIworm' As a monk, can I use Deflect Missiles to protect my ally?
Mds-MacBook-Pro:~ ZILLURRAHMAN$ type bowtie2 bowtie2 is hashed (/Users/ZILLURRAHMAN/Desktop/Bioinformatics/bow-tie/bowtie2-2.2.3/bowtie2) Using same trick can I make path for samtools? But I just typed the line in the terminal and its working now. Code: sudo
Best, -b On Tue, May 24, 2011 at 4:14 PM, Kurt Showmaker