project.git/reproduce/software/config/installation/checksums.mk, branch journal-a-and-a Core Maneage branch (where all projects derive from) IMPORTANT!!! Configuration Makefiles now have a .conf suffix 2020-01-20T01:27:03+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2020-01-20T00:05:41+00:00 7ac86df891798fd1f0ef4d7a40aff43ec9621854 Until now, the configuration Makefiles (in `reproduce/software/config/installation' and `reproduce/analysis/config') had a `.mk' suffix, similar to the workhorse Makefiles. Although they are indeed Makefiles, but given their nature (to only keep configuration parameters), it is confusing (especially to early users) for them to also have a `.mk' (similar to the analysis or software building Makefiles). To address this issue, with this commit, all the configuration Makefiles (in those directories) are now given a `.conf' suffix. This is also assumed for all the files that are loaded. The configuration (software building) and running of the template have been checked with this change from scratch, but please report any error that may not have been noticed. THIS IS AN IMPORTANT CHANGE AND WILL CAUSE CRASHES OR UNEXPECTED BEHAVIORS FOR PROJECTS THAT HAVE BRANCHED FROM THIS TEMPLATE. PLEASE CORRECT THE SUFFIX OF ALL YOUR PROJECT'S CONFIGURATION MAKEFILES (IN THE DIRECTORIES ABOVE), OTHERWISE THEY AREN'T AUTOMATICALLY LOADED ANYMORE. 
Until now, the configuration Makefiles (in
`reproduce/software/config/installation' and `reproduce/analysis/config')
had a `.mk' suffix, similar to the workhorse Makefiles. Although they are
indeed Makefiles, but given their nature (to only keep configuration
parameters), it is confusing (especially to early users) for them to also
have a `.mk' (similar to the analysis or software building Makefiles).

To address this issue, with this commit, all the configuration Makefiles
(in those directories) are now given a `.conf' suffix. This is also assumed
for all the files that are loaded.

The configuration (software building) and running of the template have been
checked with this change from scratch, but please report any error that may
not have been noticed.

THIS IS AN IMPORTANT CHANGE AND WILL CAUSE CRASHES OR UNEXPECTED BEHAVIORS
FOR PROJECTS THAT HAVE BRANCHED FROM THIS TEMPLATE. PLEASE CORRECT THE
SUFFIX OF ALL YOUR PROJECT'S CONFIGURATION MAKEFILES (IN THE DIRECTORIES
ABOVE), OTHERWISE THEY AREN'T AUTOMATICALLY LOADED ANYMORE.
GNU Make updated to version 4.3 2020-01-19T23:30:26+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2020-01-19T23:30:26+00:00 e3bbc17c051c7ccbf9e5375b85c90e5e41af2adb GNU Make 4.3 was just announced, so I have updated it here is well. This was important because until now the installable version was in alpha-mode (4.2.90), now its a stable version. 
GNU Make 4.3 was just announced, so I have updated it here is well. This
was important because until now the installable version was in alpha-mode
(4.2.90), now its a stable version.
Updated verion of Astropy to 4.0 the most recent one 2020-01-13T15:03:31+00:00 Raul Infante-Sainz infantesainz@gmail.com 2020-01-13T15:03:31+00:00 f73e63f7964c21feac9f7965f8ac8749f8367539 Newer versions of Astropy package has been released. With this commit, it has been updated. It has been increased from v3.2.1 to v4.0 
Newer versions of Astropy package has been released. With this commit,
it has been updated. It has been increased from v3.2.1 to v4.0
Copyright statements updated to include 2020 2020-01-01T14:25:05+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2020-01-01T14:25:05+00:00 044fc66b9679cc4556d7d6c377d881a9d128afe2 Now that its 2020, its necessary to include this year in the copyright statements. 
Now that its 2020, its necessary to include this year in the copyright
statements.
Core R package is now in template 2019-12-14T04:30:43+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2019-12-14T04:28:47+00:00 ac80e3bc163a177c5b33ad2a1b8ab9f6f09becd8 With this commit, we now have the core R interpretter within the template. We should later include instructions to install R packages (possibly in a separate top-level Makefile like Python). 
With this commit, we now have the core R interpretter within the
template. We should later include instructions to install R packages
(possibly in a separate top-level Makefile like Python).
Updated verions of Ghostscript and Gnuastro 2019-12-04T13:50:51+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2019-12-04T13:50:51+00:00 db01d15f1233a34115a7fd5ea38ad52eb7110848 Newer versions of these packages have recently come out with major improvements, so they have been updated in the template. 
Newer versions of these packages have recently come out with major
improvements, so they have been updated in the template.
GNU Project Debugger (GDB) and Pexpect can now be built 2019-11-06T17:20:54+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2019-11-06T17:20:54+00:00 5fe30b319c46ab82859d727d6d55461a951f614b These two packages are necessary to build the GNU C Library. 
These two packages are necessary to build the GNU C Library.
Perl is now built as a basic dependency of the template 2019-11-06T12:11:39+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2019-11-06T12:11:39+00:00 bf6b8c09569bd1cb03f5a910e2ae1475d5dc7c44 Perl is necessary to build Texinfo and later to build LaTeX. Until now we were just using the host operating system's installation of Perl, but in some instances that Perl can be too old and not suppor the features necessary. With this commit, Perl is now built from source during the basic installation step of the template. This was reported by Idafen Santana Pérez, after trying the pipeline on an Amazon AWS EC2 system (a Linux distro by Amazon for its cloud services). 
Perl is necessary to build Texinfo and later to build LaTeX. Until now we
were just using the host operating system's installation of Perl, but in
some instances that Perl can be too old and not suppor the features
necessary. With this commit, Perl is now built from source during the basic
installation step of the template.

This was reported by Idafen Santana Pérez, after trying the pipeline on an
Amazon AWS EC2 system (a Linux distro by Amazon for its cloud services).
Corrected build of log4cxx by re-building the tarball used 2019-11-03T14:07:55+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2019-11-03T14:07:55+00:00 dda89debd25af2ed4628fdd5772640b958de86f9 When building the log4cxx tarball from its Git history, I noticed that files with very long names are not packaged by tar (because by default Automake uses the ancient v7 tar format that only supports file names less than 99 characters). So I build the tarball with the `tar-ustar' option to Automake (by modifying the log4cxx source) and the resulting tarball was able to compile and run successfully. This has been described above the rule to build log4cxx and I also sent an email to their developing mailing list to inform them of this problem. If they address it, I will remove the note on the necessary corrections. 
When building the log4cxx tarball from its Git history, I noticed that
files with very long names are not packaged by tar (because by default
Automake uses the ancient v7 tar format that only supports file names less
than 99 characters).

So I build the tarball with the `tar-ustar' option to Automake (by
modifying the log4cxx source) and the resulting tarball was able to compile
and run successfully. This has been described above the rule to build
log4cxx and I also sent an email to their developing mailing list to inform
them of this problem. If they address it, I will remove the note on the
necessary corrections.
Minor corrections in distribution and autoconf prerequisite of automake 2019-10-31T20:32:39+00:00 Mohammad Akhlaghi mohammad@akhlaghi.org 2019-10-31T20:32:39+00:00 e37673130c821a8bbdf9da1907cf1cdb0b689bbe Some minor corrections were made in the template: - When making the distribution, `.swp' files (created by Vim) are also removed. - Autoconf is set as a prerequisite of Automake I was also trying to add the Apache log4cxx, but its default 0.10.0 tarball needs some patches, so I have just left it half done until someone actually needs it and we apply the patch. 
Some minor corrections were made in the template:

 - When making the distribution, `.swp' files (created by Vim) are also
   removed.

 - Autoconf is set as a prerequisite of Automake

I was also trying to add the Apache log4cxx, but its default 0.10.0 tarball
needs some patches, so I have just left it half done until someone actually
needs it and we apply the patch.