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Top Forums Shell Programming and Scripting Cygwin - cannot execute binary file Post 302672451 by Tribe on Monday 16th of July 2012 11:14:39 AM
Old 07-16-2012
You need faToTwoBit compiled in Windows exe (PE) format but against cygwin1.dll not the native windows dll. You can't run native ELF binaries on Cygwin.

As fas as I know, the faToTwoBit application hasn't been ported yet to cygwin.

You can take a look here:

samtools installation - SEQanswers
SAMtools installation - SEQanswers

Seems to be problematic to compile under cygwin.
This User Gave Thanks to Tribe For This Post:
 

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Mono(Mono 1.0)															    Mono(Mono 1.0)

NAME
mono-config - Mono runtime file format configuration DESCRIPTION
The Mono runtime will load configuration data from the installation prefix /etc/mono/config file, the ~/.mono/config or from the file pointed by the MONO_CONFIG environment variable. For each assembly loaded a config file with the name: /path/to/the/assembly.exe.config is loaded as well as the ~/.mono/assemblies/ASSEM- BLY/ASSEMBLY.EXT.config file. This file controls the behavior of the runtime. The file contains an XML-like file with various sections, all of them contained inside a section (It actually uses GMarkup to parse the file). This page describes the Unix-specific and Mono-specific extensions to the configuration file; For complete details, see the http://www.mono-project.com/Config web page. <dllmap> directive You use the dllmap directive to map shared libraries referenced by P/Invoke in your assemblies to a different shared library. This is typically used to map Windows libraries to Unix library names. The dllmap element takes two attributes: dll This should be the same string used in the DllImport attribute, optionally prefixed with "i:" to indicate that the string must be matched in a case-insensitive way target This should be the name of the library where the function can be found: this name should be suitable for use with the platform native shared library loading routines (dlopen etc.), so you may want to check the manpages for that, too. <dllentry> directive This directive can be used to map a specific dll/function pair to a different library and also a different function name. It should appear inside a dllmap element with only the dll attribute specified. The dllentry element takes 3 attributes: dll This is the target library, where the function can be found. name This is the name of the function as it appears in the metadata: it is the name of the P/Invoke method. target This is the name of the function to lookup instead of the name specified in the P/Invoke method. Mapping based on operating system and cpu Both the dllmap and the dllentry elements allow the following two attributes which make it easy to use a single configuration file and sup- port multiple operating systems and architectures with different mapping requirements: os This is the name of the operating system for which the mapping should be applied. Allowed values are: linux, osx, solaris, freebsd, openbsd, netbsd, windows, aix, hpux. cpu This is the name of the architecture for which the mapping should be applied. Allowed values are: x86, x86-64, sparc, ppc, s390, s390x, arm, mips, alpha, hppa, ia64. wordsize This is the size of registers on the target architecture, it can be either 32 or 64. The attribute value for both attributes can be a comma-separated list of the allowed values. Additionally, the first character may be a '!' to reverse the meaning. An attribute value of "!windows,osx", for example, would mean that the entry is considered on all operating sys- tems, except on Windows and OS X. No spaces are allowed in any part of the value. Note that later entries will override the entries defined earlier in the file. EXAMPLES
The following example maps references to the `cygwin1.dll' shared library to the `libc.so.6' file. <configuration> <dllmap dll="i:cygwin1.dll" target="libc.so.6"/> </configuration> The library name in the DllImport attribute is allowed to be in any case variant, like the following examples: [DllImport ("cygwin1.dll")] [DllImport ("Cygwin1.dll")] [DllImport ("cygwiN1.Dll")] This one maps the following C# method: [DllImport ("libc")] static extern void somefunction (); to differentfunction in libdifferent.so , but to the same function in the library libanother.so when running under the Solaris and FreeBSD operating systems. <configuration> <dllmap dll="libc"> <dllentry dll="libdifferent.so" name="somefunction" target="differentfunction" /> <dllentry os="solaris,freebsd" dll="libanother.so" name="somefunction" target="differentfunction" /> </dllmap> </configuration> SEE ALSO
mono(1),monodis(1),mint(1) Mono(Mono 1.0)
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