01-05-2011
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10 More Discussions You Might Find Interesting
1. UNIX for Dummies Questions & Answers
I've been having problems downloading Red Hat 7.2 from their FTP site. It downloads rather slowly(between 2-3k/sec, I'm on broadband) and after about 10 minutes stops downloading altogether. Am I doing something wrong? (2 Replies)
Discussion started by: Tradewynd
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2. Linux
Hi,
I builded the linux kernel 2.6 with the following tool chain
binutils:2.16
gcc:3.4.4
glibc:2.3.5
kernel:2.6.10
and applied the corresponding patches to it.I got the kernel Image.I downloaded the Image on to the AT91RM9200 board.But when i am booting the image it is showing the... (1 Reply)
Discussion started by: yugandhar
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3. Shell Programming and Scripting
HI,
I'm downloading one day old files from ftp site.
Below is my script
----------------------------
printf "open $HOST \n" > ftp.cmd
printf "user $USER $PASSWD\n" >> ftp.cmd
printf "bin\n" >> ftp.cmd
#printf "cd /Models/\n" >> ftp.cmd
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printf "for oldfile... (4 Replies)
Discussion started by: shekhar_v4
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4. Shell Programming and Scripting
Hi All,
I have a requirement of dowloading the dynamic form content displayed in a webpage as a pdf file. The form content is not too complex but intermediate - it has textboxes, images, textarea, radiobuttons,dropdowns etc.
Can anyone suggest how i can achieve this? Your... (0 Replies)
Discussion started by: DILEEP410
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5. Solaris
Hello,
I am getting a HTTP error while downloading solaris patches using wget.
'Downloading unsigned patch 113096-03.
--2010-06-18 03:51:15-- http://sunsolve.sun.com/pdownload.pl?target=113096-03&method=h
Resolving sunsolve.sun.com (sunsolve.sun.com)... 192.18.108.40
Connecting to... (5 Replies)
Discussion started by: sunny_a_j
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6. UNIX for Dummies Questions & Answers
Hi there,
I've got my own domain, ftp etc.. I'm using cPanel and I want to download a file periodically, every say 24 hours.
I've used this command:
wget -t inf http : / / www . somesite . com / webcam.jpg
ftp : / / i @ MyDomain . net : Password @ ftp . MyDomain . net^no spaces... (24 Replies)
Discussion started by: zYx
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7. Shell Programming and Scripting
Hello everyone. I'm new both to the forum and to unix scripting, and this website has been very useful in putting together a script I am working on. However, I have run into a bit of a snag, which is why I have come here seeking help. First I will say what I am trying to do, and then what I have... (2 Replies)
Discussion started by: keltonhalbert
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8. Shell Programming and Scripting
Hi,
I would like to download a file from a https website. I don't have the file name as it changes every day.
I am using the following command:
wget --no-check-certificate -r -np --user=ABC --password=DEF -O temp.txt https://<website/directory>
I am getting followin error in my... (9 Replies)
Discussion started by: pinnacle
9 Replies
9. Shell Programming and Scripting
wget -i genedx.txt
The code above will download multiple pdf files from a site, but how can i download and convert these to .txt?
I have attached the master list (genedx.txt - which contains the url and file names)
as well as the two PDF's that are downloaded. I am trying to have those... (7 Replies)
Discussion started by: cmccabe
7 Replies
10. Shell Programming and Scripting
I need a hint for using wget for getting a free content from a TV station that is streaming its material for a while until it appears on any video platform, that means no use of illegal methods, because it is on air, recently published and available. But reading the manual for wget I tried the... (5 Replies)
Discussion started by: 1in10
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LEARN ABOUT DEBIAN
bp_classify_hits_kingdom
BP_CLASSIFY_HITS_KINGDOM(1p) User Contributed Perl Documentation BP_CLASSIFY_HITS_KINGDOM(1p)
NAME
classify_hits_kingdom - classify BLAST hits by taxonomic kingdom
USAGE
classify_hits_kingdom [-i tab_file] [-i second_BLAST_file] [-e evalue_cutoff]
[-t dir_where_TAXONOMY_files_are] [-g gi2taxid]
[-z PATH_TO_zcat] [-v]
DESCRIPTION
Will print out the taxonomic distribution (at the kingdom level) for a set of hits against the NR database. This script assumes you've
done a search against the protein database, you'll have to make minor changes in the gi_taxid part to point to the gi_taxid_nuc.dump file.
This expects BLAST files in tabbed -m9 or -m8 format. Output with -m 8 or use blast2table.pl to convert (or fastam9_to_table.PLS if using
FASTA).
Input values:
-t/--taxonomy directory where the taxonomy .dmp files are (from NCBI)
-g/--gi Location of gi_taxid_prot.dmp (or gi_taxid_nucl.dmp if
the search was against a NT db)
-i/--in The name of the tab delimited -m8/-m9 output files to
process.
-e/--evalue Provide an E-value cutoff for hits to be considered
-z/--zcat Path to the 'zcat' executable, can also be 'gunzip -c'
if no zcat on your system.
Flags
-v/--verbose To turn on verbose messages
-h/--help Display this helpful information
This is intended to be useful starting script, but users may want to customize the output and parameters. Note that I am summarizing the
kingdoms here and Eukaryota not falling into Metazoa, Viridiplantae, or Fungi gets grouped into the general superkingdom Eukaryota. for
simplicity. There are comments in the code directing you to where changes can be made if you wanted to display hits by phylum for example.
Note that you must wipe out the cache file 'gi2class' that is craeed in your directory after making these changes.
AUTHOR
Jason Stajich jason_at_bioperl_dot_org
perl v5.14.2 2012-03-02 BP_CLASSIFY_HITS_KINGDOM(1p)