Hi Scott, Martin,there was still a small problem in cairo.I made a PR to fix this (https://github.com/galaxyproject/tools-devteam/pull/300)I should have paid a bit more attention ...Cheers,MariusOn 1 December 2015 at 22:46, Scott Szakonyi <Scott.B.Szakonyi.1@nd.edu> wrote:Hi Martin,I've been able to resolve all of the issues with Picard dependencies except for Cairo. It's still failing with this error:If you have any suggestions about this error, I'd be pleased to attempt to resolve it.Best,ScottOn Tue, Dec 1, 2015 at 10:01 AM, Scott Szakonyi <Scott.B.Szakonyi.1@nd.edu> wrote:Hi Martin,Thanks very much for your reply, and also to Marius.After some investigation, it appears that there is a firewall issue on my Galaxy server which is preventing the download of the file via FTP. I'm looking into options for that now.Best,ScottOn Tue, Dec 1, 2015 at 9:56 AM, Martin Čech <marten@bx.psu.edu> wrote:Hello Scott,thanks to Marius van den Beek the first two issues should be fixed with this PR: https://github.com/galaxyproject/tools-devteam/pull/299These changes were already propagated to the Main Tool Shed.Note for tool developers: for future endeavours please use packages from the IUC repository (https://github.com/galaxyproject/tools-iuc/tree/master/packages)As of the timeout for the readline package it seems the problem was on the ftp.gnu side and it is now resolved.In the future Galaxy plans to use a smart caching proxy to handle&mirror all source codes required by the Tool Shed installations. This effort is lead by Eric Rasche and you can see it here https://github.com/galaxyproject/cargo-portThank you for the report (and for using Galaxy :)).MartinOn Mon, Nov 30, 2015 at 11:29 AM Scott Szakonyi <Scott.B.Szakonyi.1@nd.edu> wrote:___________________________________________________________Hi all,I'm installing the latest revision of Picard tools (efc56ee1ade4). Picard installs successfully, and the tools are appearing in the appropriate menu, but several packages that install with Picard are reporting dependency issues, and I'm concerned that not all the tools will work appropriately. The tools reporting issues are:Is anyone else having issues with these packages? Any suggestions for resolving these problems?
- package_cairo_1_12_14 (last lines of long warning/error sequence)
- /vectorbase/web/Galaxy/galaxy-dist/dependency_dir/libpng/1.6.7/devteam/package_libpng_1_6_7/f48b920cae1f/lib: file not recognized: Is a directory
collect2: ld returned 1 exit status
make[3]: *** [libcairo.la] Error 1
make[2]: *** [all] Error 2
make[1]: *** [all-recursive] Error 1
make: *** [all] Error 2- package_pixman_0_32_4
- /usr/lib/gcc/x86_64-redhat-linux/4.4.7/../../../../lib64/crt1.o: In function `_start':
(.text+0x20): undefined reference to `main'
collect2: ld returned 1 exit status
make[2]: *** [clip-test] Error 1
make[1]: *** [all-recursive] Error 1
make: *** [all] Error 2- package_readline_6_2
- Error downloading from URL
ftp://ftp.gnu.org/gnu/readline/readline-6.2.tar.gz:
<urlopen error ftp error: [Errno 110] Connection timed out>Thanks!--Scott B. SzakonyiResearch Programmer
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___________________________________________________________
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