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Top Forums Shell Programming and Scripting Retrieving sequences corresponding to start and end position Post 303023756 by RudiC on Friday 21st of September 2018 04:28:29 PM
Old 09-21-2018
Unfortunately, this can't be tested with the data given. Howsoever, try
Code:
awk '
NR == 1         {print "seq_id            Start   End     sequence"
                 next}
NR == FNR       {SEQ = SEQ $0
                 next
                }
                {print $0, substr (SEQ, $2, $3-$2+1)
                }
' fastafile position.txt

 

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minput_get_command(3m17n)					 The m17n Library					 minput_get_command(3m17n)

NAME
minput_get_command - Get information about input method command(s). SYNOPSIS
MPlist* minput_get_command (MSymbol language, MSymbol name, MSymbol command) DESCRIPTION
Get information about input method command(s). The minput_get_command() function returns information about the command command of the input method specified by language and name. An input method command is a pseudo key event to which one or more actual input key sequences are assigned. There are two kinds of commands, global and local. A global command has a global definition, and the description and the key assignment may be inherited by a local command. Each input method defines a local command which has a local key assignment. It may also declare a local command that inherits the definition of a global command of the same name. If language is Mt and name is Mnil, this function returns information about a global command. Otherwise information about a local command is returned. If command is Mnil, information about all commands is returned. The return value is a well-formed plist (Property List) of this format: ((NAME DESCRIPTION STATUS [KEYSEQ ...]) ...) NAME is a symbol representing the command name. DESCRIPTION is an M-text describing the command, or Mnil if the command has no description. STATUS is a symbol representing how the key assignment is decided. The value is Mnil (the default key assignment), Mcustomized (the key assignment is customized by per-user customization file), or Mconfigured (the key assignment is set by the call of minput_config_command()). For a local command only, it may also be Minherited (the key assignment is inherited from the corresponding global command). KEYSEQ is a plist of one or more symbols representing a key sequence assigned to the command. If there's no KEYSEQ, the command is currently disabled (i.e. no key sequence can trigger actions of the command). If command is not Mnil, the first element of the returned plist contains the information about command. RETURN VALUE
If the requested information was found, a pointer to a non-empty plist is returned. As the plist is kept in the library, the caller must not modify nor free it. Otherwise (the specified input method or the specified command does not exist), NULL is returned. Example: MText * get_im_command_description (MSymbol language, MSymbol name, MSymbol command) { /* Return a description of the command COMMAND of the input method specified by LANGUAGE and NAME. */ MPlist *cmd = minput_get_command (langauge, name, command); MPlist *plist; if (! cmds) return NULL; plist = mplist_value (cmds); /* (NAME DESCRIPTION STATUS KEY-SEQ ...) */ plist = mplist_next (plist); /* (DESCRIPTION STATUS KEY-SEQ ...) */ return (mplist_key (plist) == Mtext ? (MText *) mplist_value (plist) : NULL); } COPYRIGHT
Copyright (C) 2001 Information-technology Promotion Agency (IPA) Copyright (C) 2001-2011 National Institute of Advanced Industrial Science and Technology (AIST) Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License <http://www.gnu.org/licenses/fdl.html>. Version 1.6.2 12 Jan 2011 minput_get_command(3m17n)
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