Re: Base-files-mketc.sh error for non-existing C:\Windows\SysWOW64\drivers\etc

2016-01-27 Thread David Lee
On 22 January 2016 at 15:13, Achim Gratz wrote: > What I mean is this: are all the Windows versions that Cygwin supports > looking for the hosts and other files in > > %windir%\system32\drivers\etc > > or are there some versions, situations or configurations where it looks for > those files in

Re: Re error after installing cygwin64 4.3.1.1

2016-01-27 Thread Marco Atzeri
On 27/01/2016 05:24, Robert May wrote: Marco what I have done is in makefile line 26CFLAGS = -g -Wall -O2 -std=gnu99 ## added -std=gnu99 above line 66 ALL_LDFLAGS = $(HTSLIB_LDFLAGS) $(LDFLAGS) ## remove -rdynamic from ALL_LDFLAGS above and this is the result of the next make run Robert@

Re: bcftools error running Make after installing update 2.4.1.1 to Cygwin64

2016-01-27 Thread Marco Atzeri
On 27/01/2016 05:53, Robert May wrote: I have had another look at Makefile and I changed c to gnu in this line 40 -std=gnu99 CFLAGS = -g -Wall -Wc++-compat -O2 -std=gnu99 I had also removed -rdynamic in line 185 so it now reads $(CC) $(LDFLAGS) -o $@ $(OBJS) $(HTSLIB) -lpthread -lz -lm -

Re: cannot compile anything with gcc on cygwin32; missing cygisl-10.dll

2016-01-27 Thread JonY
On 1/27/2016 15:20, Achim Gratz wrote: > Sam Habiel gmail.com> writes: >> That wasn't me; but I still observed the bug and did the same thing to >> fix it. How do I report this to the maintainer of gcc? > > Not still, again (since the provision of the gcc-5.3.0 test version). > > For the record,

Re: cannot compile anything with gcc on cygwin32; missing cygisl-10.dll

2016-01-27 Thread Achim Gratz
JonY <10walls gmail.com> writes: > Yaakov, requesting cygport feature to inject and remove dependencies, > without requiring the dependencies to be screened manually. The feature to inject dependencies is already there, via {,PKG_}REQUIRES="..." lines in the cygport file. BTW, for x86/i686 gcc-c

FW: Re Samtools error after installing cygwin64 4.3.1.1

2016-01-27 Thread Robert May
MarcoYes got samtools configure make install samtools = samtools index appears What I did line 26 added -std=gnu99 line 31 added -D_CURSES_LIB=1 -Dexpl=exp -Dlogl=logline 87 removed -rdynamic am about to try the program out Bob  Bob May DNA Projects I2b L415, I2c L596 HG, Spriggs of Cleve

Re: tree puzzle error running Configure after installing update 2.4.1.1 to Cygwin64

2016-01-27 Thread Marco Atzeri
On 27/01/2016 07:45, Robert May wrote: cyg Simple OK replaced the two files config.guess and config.sub with a 2016 timestamp and ran make again. like samtools it has a couple of warning for terms like But it does not get the job done. the problem area seems to be in this area of make ppuzz

Re: cannot compile anything with gcc on cygwin32; missing cygisl-10.dll

2016-01-27 Thread JonY
On 1/27/2016 17:46, Achim Gratz wrote: > JonY <10walls gmail.com> writes: >> Yaakov, requesting cygport feature to inject and remove dependencies, >> without requiring the dependencies to be screened manually. > > The feature to inject dependencies is already there, via > {,PKG_}REQUIRES="..." li

Re: Base-files-mketc.sh error for non-existing C:\Windows\SysWOW64\drivers\etc

2016-01-27 Thread Achim Gratz
David Lee gmail.com> writes: > (1) A bug that the base-files script tries to link to files in > C:\Windows\SysWow64\Drivers\Etc directory (should have been > C:\Windows\System32\Drivers\Etc). That was a regression in cygpath, which has since been fixed. > (2) Your concern of whether the

git clone fails with: error: chmod on config.lock failed: Invalid argument

2016-01-27 Thread Rainer Blome
Hi! When I use "git clone foo bar" on a Linux host, it works as expected. git clone foo bar Cloning into 'bar'... done. When I use the same command on my Cygwin 64 installation, this used to work, but does not work any more. I can fetch and otherwise use Git in existing repos all right (have

Re: git clone fails with: error: chmod on config.lock failed: Invalid argument

2016-01-27 Thread Ken Brown
On 1/27/2016 7:41 AM, Rainer Blome wrote: Hi! When I use "git clone foo bar" on a Linux host, it works as expected. git clone foo bar Cloning into 'bar'... done. When I use the same command on my Cygwin 64 installation, this used to work, but does not work any more. I can fetch and othe

Re: git clone fails with: error: chmod on config.lock failed: Invalid argument

2016-01-27 Thread Corinna Vinschen
On Jan 27 08:30, Ken Brown wrote: > On 1/27/2016 7:41 AM, Rainer Blome wrote: > >Hi! > > > >When I use "git clone foo bar" on a Linux host, it works as expected. > > > > git clone foo bar > > Cloning into 'bar'... > > done. > > > >When I use the same command on my Cygwin 64 installation, this us

Re: Issue Setting up SFTP/OpenSSH on Multiple PLatforms

2016-01-27 Thread Bob Coho
Brendan, Is your Windows server running Windows 10? I had a similar issue and installing Openssh 7.1p1-1 solved this issue. Openssh 7.1p2-1 had no issues with Windows 7 or XP, but I could not get it to work with Windows 10. I don't have access to a Windows 8 environment so I can't say if it wi

Re: cannot compile anything with gcc on cygwin32; missing cygisl-10.dll

2016-01-27 Thread Achim Gratz
JonY writes: > vtv was removed because there is no equivalent for 4.x, release notes > coming soon. Jon Turney had already provided an empty libvtv0 package for those versions so the dependecies for gcc-4 and gcc-5 could be merged. We were just missing the fact that libcloog-isl4 and the dependen

Re: [ANNOUNCEMENT] Updated: xorg-server-1.18.0-2 (TEST)

2016-01-27 Thread Jon Turney
On 12/01/2016 20:12, Jon Turney wrote: The following packages have been updated in the Cygwin distribution: *** xorg-server-*1.18.0-2 These packages contain XWin and the other X.Org X11 servers. These packages are currently available as a test release, and will be made stable in approximately

Re: gdb 7.8 consistently fails to run executable - error is

2016-01-27 Thread Jon Turney
On 21/01/2016 09:10, Tim Chick wrote: Jon TURNEY wrote On 14/01/2016 16:02, Tim Chick wrote: Jon TURNEY wrote I built a 32-bit version as well, but there was a slight delay with that getting moved into the release. It should be mirroring out now, though. Hi Jon, I've just tried the 7.10.1

Re: Issue Setting up SFTP/OpenSSH on Multiple Platforms

2016-01-27 Thread Brendan Maloney
I'm running windows server 2008 R2 so basically windows 7. Brendan, Is your Windows server running Windows 10? I had a similar issue and installing Openssh 7.1p1-1 solved this issue. Openssh 7.1p2-1 had no issues with Windows 7 or XP, but I could not get it to work with Windows 10. I don't ha

RE: Issue Setting up SFTP/OpenSSH on Multiple PLatforms

2016-01-27 Thread Brendan Maloney
It's running Server 2008 RC2 so basically windows 7. Brendan Maloney Texas A&M University at Galveston IS - Programmer Analyst (409)741-7174 Please provide feedback on our services. -Original Message- From: cygwin-ow...@cygwin.com [mailto:cygwin-ow...@cygwin.com] On Behalf Of Bob Coho S

RE: Issue Setting up SFTP/OpenSSH on Multiple PLatforms

2016-01-27 Thread Brendan Maloney
Ok I fixed the problem with not being able to connect from my mac systems. I had to change a bunch of permissions that I found in a different setup guide and it started working. I can use ssh and sftp from command line as well as Filezilla although it doesn't seem to recognize my default path

RE: Issue Setting up SFTP/OpenSSH on Multiple PLatforms

2016-01-27 Thread Brendan Maloney
I'm using ssh--copy-id which should do the same thing but I keep getting a "permission denied" error after I enter my password. I read up on this a little and did a chmod 0700 /home/user/.ssh to make sure permissions on that folder were right but it still didn't work. Would doing it using the

Re: stampy error running Make after installing update 2.4.1.1 to Cygwin64

2016-01-27 Thread Michael Enright
On Tue, Jan 26, 2016 at 11:10 PM, Robert May wrote: > > I still can.t make sense of it > below is the contents of makefile > > the end of running make is still the same > $ make > makefile:1: *** missing separator. Stop. > I didn't get that line but I got several others. I extracted a makefile f

Re: cannot compile anything with gcc on cygwin32; missing cygisl-10.dll

2016-01-27 Thread JonY
On 1/28/2016 00:33, Achim Gratz wrote: > JonY writes: >> vtv was removed because there is no equivalent for 4.x, release notes >> coming soon. > > Jon Turney had already provided an empty libvtv0 package for those > versions so the dependecies for gcc-4 and gcc-5 could be merged. We > were just m

Re: git clone fails with: error: chmod on config.lock failed: Invalid argument

2016-01-27 Thread Christopher Cobb
Or maybe chmod is broken, like it is on my machine: $ touch x $ chmod 777 x chmod: changing permissions of ‘x’: Invalid argument > Sent: Wednesday, January 27, 2016 at 9:53 AM > From: "Corinna Vinschen" > To: cygwin@cygwin.com > Subject: Re: git clone fails with: error: chmod on config.lock fail

[ANNOUNCEMENT] tzcode 2016a-1

2016-01-27 Thread Yaakov Selkowitz
The following packages have been uploaded to the Cygwin distribution: * tzcode-2016a-1 The Time Zone Database (often called tz or zoneinfo) contains code and data that represent the history of local time for many representative locations around the globe. It is updated periodically to reflect

Re: Base-files-mketc.sh error for non-existing C:\Windows\SysWOW64\drivers\etc

2016-01-27 Thread David Lee
Sorry I missed that - will try the new version today or tomorrow. On 27 January 2016 at 19:52, Achim Gratz wrote: > David Lee gmail.com> writes: >> (1) A bug that the base-files script tries to link to files in >> C:\Windows\SysWow64\Drivers\Etc directory (should have been >> C:\Windows\

[ANNOUNCEMENT] curl 7.47.0-1

2016-01-27 Thread Yaakov Selkowitz
The following packages have been uploaded to the Cygwin distribution: * curl-7.47.0-1 * libcurl4-7.47.0-1 * libcurl-devel-7.47.0-1 * libcurl-doc-7.47.0-1 curl is a command line tool and library for transferring files with URL syntax, supporting FTP, FTPS, HTTP, HTTPS, SCP, SFTP, TFTP, TELNET, DIC

[ANNOUNCEMENT] krb5 1.13.2-4

2016-01-27 Thread Yaakov Selkowitz
The following packages have been uploaded to the Cygwin distribution: * krb5-workstation-1.13.2-4 * krb5-server-1.13.2-4 * krb5-server-ldap-1.13.2-4 * krb5-pkinit-1.13.2-4 * krb5-k5tls-1.13.2-4 * krb5-samples-1.13.2-4 * krb5-doc-1.13.2-4 * libgssapi_krb5_2-1.13.2-4 * libgssrpc4-1.13.2-4 * libk5cry

[ANNOUNCEMENT] imlib2 1.4.7-1

2016-01-27 Thread Yaakov Selkowitz
The following packages have been uploaded to the Cygwin distribution: * imlib2-1.4.7-1 * libImlib2_1-1.4.7-1 * libImlib2-devel-1.4.7-1 This is the Imlib 2 library - a library that does image file loading and saving as well as rendering, manipulation, arbitrary polygon support, etc. It does ALL

[ANNOUNCEMENT] meld 1.8.6-1

2016-01-27 Thread Yaakov Selkowitz
The following package has been added to the Cygwin distribution: * meld-1.8.6-1 Meld is a GUI tool for analyzing two- and three-way diffs between files or directories, as well as several version control systems. -- Yaakov -- Problem reports: http://cygwin.com/problems.html FAQ:

[ANNOUNCEMENT] php 5.6.17-1

2016-01-27 Thread Yaakov Selkowitz
The following packages have been uploaded to the Cygwin distribution: * php-5.6.17-1 * php-devel-5.6.17-1 * httpd-mod_php5-5.6.17-1 * php-bcmath-5.6.17-1 * php-bz2-5.6.17-1 * php-calendar-5.6.17-1 * php-ctype-5.6.17-1 * php-curl-5.6.17-1 * php-dba-5.6.17-1 * php-enchant-5.6.17-1 * php-exif-5.6.17-