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[info-gnuastro] Gnuastro 0.11.49 released

From: Mohammad Akhlaghi
Subject: [info-gnuastro] Gnuastro 0.11.49 released
Date: Sun, 19 Apr 2020 04:11:23 +0100
User-agent: Mozilla/5.0 (X11; Linux x86_64; rv:68.0) Gecko/20100101 Thunderbird/68.7.0

Hello everyone,

I hope you and your families are doing well in this difficult time of
the pandemic and the resulting social distancing.

Its been more than 4 months since the release of Gnuastro 0.11 and we
have been very busy with many new features added to Gnuastro and some
bugs found and fixed: 49 commits to be exact (see [1] below for the
full list). So I thought its about time to get ready for Gnuastro 0.12
with this alpha release. It would be great if you can try it out and
and let us know if there is any problem (compiler warning, un-expected
behavior, or a crash). This will allow Gnuastro to be as clean and
useful as possible for everyone.

Let me highlight a few new features (done by three new contributors to
Gnuastro's source): The Crop program's `--polygon' option now works on
concave polygons (when an internal angle is larger than 180 degrees)
and . This is very useful for cropping out some deep fields that have
zig-zag-like edges. It can also deal with self-intersecting
polygons. Also, the Table program can now concatenate columns of
multiple tables (with same number of rows), and it can convert RA (in
HH:MM:SS) and Dec (in DD:MM:SS) to degrees and vice-versa: with its
four new column-arithmetic operators.

Here is the compressed source and the GPG detached signature for this
release. To uncompress Lzip tarballs, see [2]. To check the validity
of the tarballs using the GPG detached signature see [3]: (3.4MB) (833B)

Here are the MD5 and SHA1 checksums:
6ac74fdb27d470c37530d3a0f2fdbae0  gnuastro-0.11.49-f0539.tar.lz
76dec53ecb4896079fcb1c066dde605b32db88de  gnuastro-0.11.49-f0539.tar.lz

I am very grateful to Sachin Kumar Singh, Madhav Bansal and Kartik
Ohri for their great contributions for the features highlighted
above. Alejandro Serrano Borlaff and Joseph Putko also provided very
useful suggestions and bug reports for this release, thanks guys ;-).

If any of Gnuastro's programs or libraries are useful in your work,
please cite _and_ acknowledge them. For citation and acknowledgment
guidelines, run the relevant programs with a `--cite' option (it can
be different for different programs, so run it for all the programs
you use). Citations _and_ acknowledgments are vital for the continued
work on Gnuastro, so please don't forget to support us by doing so.

This tarball was bootstrapped (created) with the tools below. Note
that you don't need these to build Gnuastro from the tarball, these
are the tools that were used to make the tarball itself. They are only
mentioned here to be able to reproduce/recreate this tarball later.
  Texinfo 6.7
  Autoconf 2.69
  Automake 1.16.2
  Help2man 1.47.13
  ImageMagick 7.0.10-6
  Gnulib v0.1-3354-g47bf2cf31
  Autoconf archives v2019.01.06-97-gfd1d25c

The dependencies to build Gnuastro from this tarball on your system
are described here:

Best wishes,
Postdoctoral research fellow,
Instituto de Astrofísica de Canarias (IAC),
Calle Vía Láctea, s/n, E38205,
San Cristóbal de La Laguna, Tenerife, Spain.

[1] Noteworthy changes since Gnuastro 0.11

** New features

   - New `quantile' operator for coadding datasets.
- New `size' operator to report length of dataset in requested dimension. - When `--wcsfile' is given the value `none', output will not have any WCS.

   --listlines: list the pre-defined spectral line wavelengths and
     names (which you can use with the `--obsline' and `--lineatz'
     options). This is convenient when you forget the specific name of
     the spectral line used within Gnuastro, or generally want to
     recall the exact wavelength of a spectral line.

   --polygon: can now also crop concave polygons (when atleast one inner
     angle is more than 180 degrees). Concave polygons occur a lot in deep
     astronomical imaging: in the shape of the deepest regions.
   --polygonsort: Sort the given set of vertices to the `--polygon'
     option. For a concave polyton, the sorting will be correct, but for a
     convex polygon, there is no unique solution/sorting, so it may not be
     what you expect, see the manual.

   --datasum: Calculate and print the given HDU's "datasum" to stdout.
   --datetosec: Can also account for `Z' in the end of the date-time
     string. According to `', a `Z'
     effectively means no time zone, or UTC time (which is the default in
     FITS). It still doesn't account for time zone hours of the

   --sigmaclip: defines the sigma-clipping parameters for those columns.
   New output columns:
     --sigclip-mean: Sigma-clipped mean of pixels in object/clump.
     --sigclip-number: Number of sigma-clipped pixels in object/clump.
     --sigclip-median: Sigma-clipped median of pixels in object/clump.
--sigclip-std: Sigma-clipped standard deviation of pixels in object/clump.

   --equal: Can now work on columns with string type also.
   --notequal: Can now work on columns with string type also.
--catcolumn: Concatenate tables by column (keeping number of rows fixed).
   --catcolhdu: Specify the HDU/extension of the FITS files of --catcolumn.
   - New operators in column arithmetic:
     - `ra-to-degree': Convert Right Ascension (HH:MM:SS) to degrees.
     - `dec-to-degree': Convert Declination (DD:MM:SS) to degrees.
     - `degree-to-ra': Convert degrees to Right Ascension (HH:MM:SS).
     - `degree-to-dec': Convert degrees to Declination (HH:MM:SS).

   - GAL_SPECLINES_INVALID_MAX: Total number of spectral lines, plus 1.
   - GAL_ARITHMETIC_OP_QUANTILE: operator for `gal_arithmetic'.
   - gal_txt_trim_space: trim white space before and after a string.
   - gal_polygon_is_convex: identify if a polygon is convex or concave.
   - gal_polygon_is_inside: if point is inside polygon (convex or concave).
- gal_polygon_is_counterclockwise: check if polygon is counter-clockwise. - gal_polygon_to_counterclockwise: convert to counter-clockwise if it isn't. - gal_polygon_vertices_sort: un-ordered vertices to concave/convext polygons.
   - gal_units_extract_decimal: Extract numbers from strings like "A:B:C".
   - gal_units_ra_to_degree: Convert RA (HH:MM:SS) to degrees.
   - gal_units_dec_to_degree: Convert Dec (DD:MM:SS) to degrees.
   - gal_units_degree_to_ra: Convert degrees to RA (DD:MM:SS).
   - gal_units_degree_to_dec: Convert degrees to Dec (DD:MM:SS).

** Changed features

  All programs and libraries:
   --minmapsize: Gnuastro's programs no longer attempt to write
     memory-mapped files under `.gnuastro'. They will only attempt to write
     them under the `.gnuastro_mmap' directory. Until now, when an internal
     array needed to be memory-mapped, Gnuastro's programs (through the
     `pointer.h' library) would first try writing the mmap files in the
     `.gnuastro' directory. When it failed it would attempt writing in the
     `.gnuastro_mmap' directory. However, `.gnuastro' is also used to store
     configuration files (which are hand-written and thus valuable). Mixing
     the two types of source (configuration files) and automatically
     generated (memory-mapped) files is very problematic.
   - FITS ASCII tables: When a column has a floating point type, but its
     ASCII string can't be parsed as a number, it will be read as a
     NaN. Until now, the corresponding program/library would abort,
     printing the problematic string and its location.

   --polygon: by default it will no longer attempt to sort the polygon
vertices, sorting can be requested with the new `--polygonsort' option.
   --polygonout: is the new name for `--outpolygon'. Having `polygon' at
     the start of the option name, makes it easier to find in the help list
     and also to understand generally.

   - Until now, when NoiseChisel didn't detect any pixels, it just printed
     a message and wouldn't not make any output file. This was very
     inconvenient in general scripts. From now on, in this scenario, an
     output file will be created and the detection map will only have a
     value of zero. As a result, the Sky and Sky standard deviation
     extensions will be measured over all the tiles.

   - In Column arithmetic, when columns must be specified by their number,
     that number should be distinguished with a `$' before it (for example
     `$1' means the first column). Until now, this character was `c', but
     the new identifying character is very similar to AWK, allowing easier
     adoption and is also more clear. It is just important to put the total
     `arith' string within single quotes, not double quotes.

   - gal_polygon_is_inside_convex: new name for `gal_polygon_pin'.

** Bugs fixed
  bug #57300: MakeCatalog memory crash when input dataset has units.
bug #57301: MakeCatalog using river sum instead of mean times by clump area.
  bug #57921: Arithmetic's interpolation operator not reading metric.
  bug #57989: Warp not accounting for translation in pixel grid.
bug #57995: Fits lib's date to second function affected by host's timezone.

[2] Lzip has better compression ratio and archival features compared
to the common `.gz' or `.xz' formats. Therefore Gnuastro's alpha/test
releases are only in this format, but for historical reasons we also
include `.gz' tarballs in the official releases. If you don't have
Lzip (you can check with `lzip --version' command), download and
install it from its webpage:

If Lzip is present and you use GNU Tar, then the single command below
should uncompress and un-pack the tarball:

  $ tar xf gnuastro-0.11.49-f0539.tar.lz

If the command above doesn't work, you have to un-compress and un-pack
it with two separate commands (or use a pipe to feed the output of the
first into the second:
`lzip -cd gnuastro-0.11.49-f0539.tar.lz | tar -xf -'):

  $ lzip -d gnuastro-0.11.49-f0539.tar.lz
  $ tar xf gnuastro-0.11.49-f0539.tar

[3] Use a .sig file to verify that the corresponding file (without the
.sig suffix) is intact.  First, be sure to download both the .sig file
and the corresponding tarball.  Then, run a command like this:

  gpg --verify gnuastro-0.11.49-f0539.tar.lz.sig

If that command fails because you don't have the required public key,
then run this command to import it:

  gpg --keyserver --recv-keys 71E899012D174B66

and rerun the 'gpg --verify' command.

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