IMPORTANT: version updates and improved portability

Summary: this commit involves a major version update of many basic software
and Gnuastro's major dependencies. So it may affect your configuration and
analysis.

Until now, the most recent software updates weren't properly tested on
MacOS, causing the software configuration step to fail. In particular, the
'prep-source.sh' (that corrects any hard-coded '/bin/sh' within the
unpacked tarballs of all software) as well as some issues in the 'tar',
'util-linux' and 'ghostscript' programs. These portability issues were
found and fixed by Raul Infante-Sainz and Giacomo Lorenzetti.

With this commit, those portability issues have been addressed while
updating the following software. Also see notes below the list.

   High-level software:
     CFITSIO             4.5.0       -->     4.6.3
     Ghostscript         10.04.0     -->     10.06.0
     Gnuastro            0.23        -->     0.24
     Util-linux          2.40.4      -->     2.41.3
     WCSLIB              8.4         -->     8.5

   Basic software:
     cURL                8.11.1      -->     8.17.0
     GNU Bash            5.2.37      -->     5.3.9
     GNU Binutils        2.43.1      -->     2.45.1
     GNU Coreutils       9.6         -->     9.9
     GNU Diffutils       3.10        -->     3.12
     GNU AWK             5.3.1       -->     5.3.2
     GNU GCC             14.2.0      -->     15.2.0
     GNU Gettext         0.23.1      -->     0.26
     GNU Grep            3.11        -->     3.12
     GNU Gzip            1.13        -->     1.14
     GNU Libunistring    1.3         -->     1.4.1
     GNU M4              1.4.19      -->     1.4.20
     GNU MPFR            4.2.1       -->     4.2.2
     GNU Nano            8.3         -->     8.7
     GNU Readline        8.2.13      -->     8.3.3
     Git                 2.48.1      -->     2.52.0
     Less                668         -->     685
     Libxml2             2.13.1      -->     2.15.1
     OpenSSL             3.4.0       -->     3.6.0
     Perl                5.40.1      -->     5.42.0

The latest versions of Bash and M4 were prepared for the new default C
standard of GCC 15.*, so the '-std=gnu17' was removed for them. Also, while
a new version of Dash was available, it would cause an issue when building
in Apptainer, so it has been described in 'versions.conf' to be aware in
the future updates.

Libgit2 has been removed as a dependency of Gnuastro. The reason is fully
described in the comment on top of Gnuastro's build rule in
'high-level.mk'.

1 files changed, 25 insertions, 25 deletions

diff --git a/reproduce/software/config/checksums.conf b/reproduce/software/config/checksums.conf
index 89738ce..7f786c7 100644
--- a/reproduce/software/config/checksums.conf
+++ b/reproduce/software/config/checksums.conf
@@ -15,43 +15,43 @@
 
 # Basic/low-level programs and libraires (installed in any case)
 # --------------------------------------------------------------
-bash-checksum = 52fa7d14e5f05d7b1b5f64ca110388db119fd6b8d4cc25011e0e25848491507e610259091c56f3ca7a7688ee2547f8a98de2005626b35c29558e71f28e29b848
-binutils-checksum = efbc5957bd22804a860261886598778347e82f9cbc0728d21d26748b7296e34328fdc16252868169594a001a301babbcd0964d9c508523736bc79cac2aff8efc
+bash-checksum = b905e107403ceb25ad92f26ab71d6a7f12b1cadbcb27de9f5fefa7da31e96de0be281f8095170ed36e3fc22237dcfc252ff674925e6123638f6a3e11f3c5ecfd
+binutils-checksum = ad7bbebc0c4e537c15d7537027246e2c1c0d355efcd6a369c7ef91c6491ec6a6e9af24c60b7df7508213abeedbd2e53c41549889073ac1f629b0746b78ee894b
 bzip2-checksum = 929cb1b2d0db8a505e2bafe3ce2c893c8f132dd617c0110e86e19f116b570a85de3c8a635483b530456fc8f8b6698c8190d21313e47607f442807b10489ac86e
 certpem-checksum = d1198511bf1f61a624691c182ecdd57ff468030a4af8b0f0ef248a5ce1f42ed883c684fc5aafdd791d5d3aa24504fbfbab11043231594b1c4e21fdb7247e5a33
-coreutils-checksum = 2afaee98b305f000ab1c9e25b5fec6413c3e385c685f2afe94e3676593c09efca39d007cfda2b3b122e68e94204d2ebe7f50b39300899d8720518d6f74bce019
-curl-checksum = f391f696d725ace63271fe614ab3067b8d55d04be3a160c70bbca388de93670e5fb986dd5dd45e1b62c0327b2b1374ab229bdb5c9df746f70823e0721c9f048d
+coreutils-checksum = 1aa2775ef67ed9ddf30e527fd7b813ba83b43e921e1493d44c016bf2750ccb1478ea08a2cd000a619fb22f800f7f84bb03fff5acdcfad7a45d5aef833fdbf041
+curl-checksum = 5b0213eb1d1c2146c591a72ba0d763c40cf707c7fcc43f4807cccec12ddd3cc63127da0f18f96c2450efc8607812519dbccbc924b5b629712fbc7b02b4976aee
 dash-checksum = f21a2ac71606a5ae8dbda5639d111f385cc44c357c580a83e453b33faa32c92fd83f8ca6c5d2cf720343f8ab1cfec247ca499596f78ee19f62d67cd1d7ae0c69
-diffutils-checksum = 52582c860a4ce544f0c1a3e61bd9a1ce5f13e1c677b67d3713982439760e40b60267b222de3ef0a27065652822d9880a206899528d7ff8d60c7e64b64721b3e1
+diffutils-checksum = 9d42c57a5ae4770b6d84b76f324c7c09c62792cac063048793037281972983dd4c409868545f2460c281f761adba6c49fab3fa227ab5231397809474cedbdfc1
 file-checksum = b843b3c25656e8dec52e64eed6f581b29faf36540e0604a803d61c0f0eca830a01a947b81970b0d8a24a1336a37ae5c96bb2ade59daa16c544b1e82fc7db24e8
 findutils-checksum = 826c643e7f5c5d6976a47eabcd9807e51350d09ee8fc7dc931f2d9276f938f65aa0bd97e6213aa979742234784c120e1a6850a52207c327e1c1a465feb374053
 flock-checksum = f711815035e21b46572bf80e730a55822e5abf4cb29749e476ee6cf4d5027e9a7deeacf5f6b8c37f18f17a0cc7a6d98fb0be3936e97b122707f1cb2306d1e1d9
-gawk-checksum = 13cb59a4ef43e5b0d10f13263dcf5ccd72d9344f3ecc512589ed7f6d059baf8a5ae375d38f7654695e29f0694fc33deba3c7c008d61f09e67df57bf81e573f0c
-gcc-checksum = 40f239730fc0165a0ef48f252a886e9cbe7a95ed53fe2c7a16531d7f3d6faabecb2d868cc895a25f7561e7bb90892e3372652953efd8ac35359a6ac2e18a4447
-gettext-checksum = c53f3a09cbb62a3ba8870f1310da336c084bfc83534d7e9c236f7660f503d638654a91301558f1e4880ead2d629dcd92f7c3dd7e0d981d445b74215d836d19ea
-git-checksum = 6e7ac2188cf3204fceeebffc46f34a8180e53a887987a8e1b9d6c90f84073e4b86d45f39488f69432b1cd0962cd8fbd434c07128fc2e430cd2ec20f1a1fc8b61
+gawk-checksum = 9013f5cb4c08aa13029ecf0c6b5e02ac93a3b500683b07ae8d34d698f0451dd5146a0a5aef96a249112834e27b379869d8e541f6a1b99accf701ba6a48f58f33
+gcc-checksum = f7386218e0993e19da1092bf625791cb9ec269667f7bdf378fef359a304aa08e4d79cb7b9f56d5d7028b53b29071005707a1cad0fd1b770884ab02310ed7b028
+gettext-checksum = ec0aaf00e5ccfd5c0c51be2239590cf9f7f9105b072081c8374caa75c08611e4c1ebfd6ac6a487f7b54f57c2d8b493fe6ab4ca8d62592dba4db5715e67855f3d
+git-checksum = e2a3d2cf272554c0e9fa2abc4cf7b1eff17884911859f17567b76f170996802caa01675a42dbf29af7fc283a07e8dc4a11382ffbd2a03d7d62238e8c598f0b56
 gmp-checksum = ad65de00ecb46cf454ed6c40d2a57ce2528f5fa64df1284dfa15036f1e8cf27760a09a4ecdfcc39048faffb71339bba30d99dd365c54173dbc2ba629bee2fad9
-grep-checksum = b1ad850671290120ca0ced6d1744622d99a903c6e638dd231e89a70a2ab48c382100e218697b6fbbbda8c99316679a7c681383a5e954790bbffb9719bd0d6d8e
-gzip-checksum = 19ef6f51ee8274c08aa188ebd26634a40f91c057ff1ad3253719a7fa0c7ac857de5cf289990e0b9fc67d89ca3abb50db6dbaa7664d2c58275c844712834d5e10
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 isl-checksum = 615827a86e809c9645e090786008f8b37d7efc7fee6501ff81e937a299a5a72e7998a3965457d1380cb04f7e765b600276d87b7b59cae22d82aa65e71294f499
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 libiconv-checksum = 1f33fcf7f617990812a26e15092dbb2f9e81400cee117eefd40ade813f7ca17c0b9a50a7a9881b4ab0b9c0be8475528204c347d940cbc667a918570e0bde051a
 libtool-checksum = 2aa6d535b4d644393d7ca5c8f174b09923dbdb50d947ba40917aad75c8cecf957fec7a54717bd3670c44130331b1f08fae3694e32c79c8e187c31e909b3d401b
-libunistring-checksum = 6ca6a2dea2c09b6e8e63eb7ff73ab62b2e2f7c412766209c9f6da5b13a109e3a7cb41e67aaee1fb2b46549965b7df13c508000e40594570abe71819dc9cc2eaf
-libxml2-checksum = 7c2c65ae5017be5d695ec5a0e9bf443fe130d33beec97f31bcdbe74c22ac7745ce02524ca603e701035576bdca91c4cb1cbe67ccad5525f9a4566451a8f0c935
+libunistring-checksum = 3e79a3f5a1c13ce9554071ffecafa24a95ba36e2c1087940aa1ba93957ed14290779d1603b401431eda20c3da5f345a0b8842191a3e65f03fb2667e2a1443e30
+libxml2-checksum = aee3946beba88dba0a4ba573704da0c48de3233e5a1717ac6d8e647f3c8b65131c1b4d320604adedd8eff3364af11a3489a2c26b57b8151b59fca60da3f2a1c3
 lzip-checksum = 513b7ecdee1d6f12298cbbb025286c887c5e6588e1268b489735955f822a8e305e7a8d4d06054a77b2f4c40f8d82e9e6d779cd73d4227ca3cdfe4002b9e42a98
-m4-checksum = 7f8845f99e64d6a45859b9d80b03352a5526b3de0311ca4d6dd6850e504d26dfc90cd21d1640b10382f786213f8fdf20183bff424b3c41ea11432315993ab829
+m4-checksum = f24f0a0f71bb5241f8bbf5cb75e260a546ee9206b80478544944053768fae77f322839e78d5524a2bc5cdc06fa921ca88b1d366ed3c67b745cf55df3a30de158
 make-checksum = 154a0247297a7b0131ff63fa8636d651b33aacc8f4a0dad1db176995b20c2039f4fd58eeb2ec27cc0ca7a95c1853199a4ee35a14afc5084995ecc1d694203412
 mpc-checksum = 76e0720e6287d8b7a3eaa09dc5baa5a2b61dde88198c9e1bc9c458a268a44035d11fbab1c8019501a7ee2d5745c7eddfb0bb3c7297110a0fd9e027acb42d0fc3
-mpfr-checksum = c6013b0f573271a3bc41bc3eb28c61f099c6fc5409096a27624b5ec049e6305a1c48275c6f244d0cbe1fe65f649704c7d5f6487ad24308f6b3becc17032fc222
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+mpfr-checksum = 40066bbbfb394ad4fc2efcbf633542c43fc6e31e3503d0f8f425649c95cfd6aeed78e889852bdfe23f783b5b13766ebdada9c92e6a921d84c6a8703123e9c165
+nano-checksum = baac691afb7e1c956fa0be16a4857cda9513180e5b5b08d55745f5c5f53ada954301e8ab0aa12c46aeed8f984ad3cb77ea3029ec8ede9dcc76d1c84a9e640a58
 ncurses-checksum = c94eccc1b23a9c6ca9b27881674b19802942802cf21084bd80e45e0b9e50a2d99e0e18a1ecd5cf3e686949982ca93132a7fe2f117a7c4307283db5012b11a2d5
-openssl-checksum = c4c44ab8e4a6d39e6aa69b096a831645c33d5675619d31da6e441452f67e487489b33041a34038a0f8ad596506e17ce8695a8f87bae861700481ecf6b9742b76
+openssl-checksum = 7cf3cfa3a190a8944366393942faab0813c8443dce5bdb8bdf11b7cae3627f9a3ed2698c6785ef4688c42df12983c2a9ce932e58f2e3691e752589dbae5ea363
 patchelf-checksum = f74409c00e7e50a88590267fa0c173f71239f1471985792f7bcdab750d202a9a25383c015987608bbcd6ace5b3642645d46dba63199ba54fabbcb51ae7fca8f6
-perl-checksum = d53da403f2232b487f11df4b0b889babf58350715c7430515ba32e2e7d9996308c5d75ee626906a9f3c56872672c9cfe3880e10c7bb084c178c7c76bb2a5346f
+perl-checksum = d5c782948b97b706fe9650f6a9995591d9b90da3a98866d1db4d20025262d5606f4133222be4b96cc06578323db03759910e96012d8931033feaddca0e156e31
 pkgconfig-checksum = c37ab9336ac15a73bf5a23101f3fd8a04810f39b0679634e420e5d7bbd60a80cfc919122694cf83965beb071d2780681efc8d954ce99d77eb235a4dc7497e250
 podlators-checksum = 2e1e8547b0c890101a9fb8d80807b164a0a708820617a6826127930f85115285a0e4d62ddf8ce2401df14c021521a1b3ce0cad0d308e08f7b3d0c49d1b0dd36f
-readline-checksum = ca08305c5a6d5eb6656a7cdff73aab65c1234de62db8da90335e9ea140b1d4f8a867204bdc49ead3acc5e5236358130e73032bd73de5dfe1eee5bb2c76be5cb2
+readline-checksum = 349248d78cfc1deebdaaefc70a044835139cb8775d74bb33ae2a2600d9daef2b169608a8f706fc803a8d95fe9b309da1db0c6d19fa78eaa67430aff5b13feaa2
 sed-checksum = e801dacce45a08671e65897f85be0a37a29d97f61e846ca17ff870d3ab9f5a639dba73457491087ff637df4a81099b864d2496d59acf17a07916b43bfe0ae480
 tar-checksum = f8d0b543dc4a2a57d61d8a183d7a64d611d11f033c64683f022a7f1f956d352d364a959903a2549ab1256c1a068de51052960cf34a70f355b80e237f654bfac7
 texinfo-checksum = 06e7d95d73380c16f064e119bd8717942fb464c1cbc532fb1833d2d5dfc3cbbcab2a9001a1d03721c347f676e1db22c2a0f78d19d22df379d0393527be411ef3
@@ -85,7 +85,7 @@ bison-checksum = 08c3e9bcf9fc01bc8b3a6c5e5f8ecdf628e07d6ce0874341e9df6d7b2925db7
 boost-checksum = df252f6aabd9b1d5421afc478fa288e947a7c5e11f26e54f0a8619c9ac5e16688c20f44106a429ae798b20a4c97cbf800ee0ac9b2aa7febe1bd2755c88802ac1
 cairo-checksum = 5de8528196b450d01da5cd4562dec0dd8c31028b77640b6c611172f7c5ad1dc9a4d30bd4e38259344c3ee42b979e29be702a3190aae5fbf47c82c79ee0c14a8e
 cdsclient-checksum = 24584eedeb84ab4666cbd2ed0b7264c92c63c9cf090595b75b01dd46f848419d6a7e5cff4db3946695f879d0ee2bfbeb527e88c2be85e769b577302d9b2ad2b7
-cfitsio-checksum = fd40e0cec22bf3a35a7c48ad61a6ebad5a54d3230606c7492161c067b7ccd303ed34d149427bf1d3365e7a3082d89b51df46fc8a9c3d3c0b1eef8756374d711e
+cfitsio-checksum = 60e10544bad66812dca3ff04620051c2c99d047952b5fa6280f4ca443affcbe4806b84f4cb439036b9affd42ab82cf723ae7866aabd33629b25e8edaaba63c72
 cmake-checksum = 3904964eeb256ae4443d000a24ebdbfd76c677aec08d006f8665020f1ebf2008c65b6a1cffd6fb5b8a29cdb52420415ed2e0e2ea258db2e9888dc48068fc3941
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 emacs-checksum = 91313dced8cd74f9e4a996eef42806aad00fb2576fc77b3694bb7b670624b6a1551ff49c2a3326dbeeba916e5732ca5975b5dc40b3b063f6e73a22839009abe9
@@ -94,10 +94,10 @@ fftw-checksum = 28bd2f620399a415181027d30d7ea193aa487c7a277c9943d0051488908fd87e
 flex-checksum = a18e0dcdd21bd51779fd70e5efc2d77fa7b2a56d4d0e929d8abb437f86d7fcfa2cd09b8268185698200866dac8bec4444c5a7cff3140c515eaa49fc77c5aea66
 freetype-checksum = fb2d89421633a56d4276b192106d930c9f29cf2b70c52d9e13ba0c6a2679b6f69c20ab9f14480522992c263b493f198f24593bdeddb5806a4d801ab7604a5926
 gdb-checksum = 4afd6660d2bbc4c48ce726062fb42217bdaa5974774407358b2624036a2ace48ed853746e4d6b83b9a409cd8fefc622b0727c79da8826e28e3d1444fa3a9d148
-ghostscript-checksum = 2d6422d434cbe6612d4e995022322e17d0167d0d92fe1f6fe122da73558a81fa43025458411e38363a0e30a573cbc6cf997ae7aa562501787d0af88bf1b5b387
+ghostscript-checksum = 516f7f3bf8650ff5cf5a913ac1d69c196dbf62de97b77fba75fad7cfbace5c978a4aff7da0ede3590f56d68b240398ee17a1a504bd8e8ee76a4879b0b3b6a8df
 ghostscript-fonts-gnu-checksum = d8de17e5d920bd3803ecdc07aca224fa5b9a26db847ddae0ecc79488dc3e867ab3155a8565f20df7855e5228bc7f36a549b082ba0b8b56c9b948d6cfb655fdc0
 ghostscript-fonts-std-checksum = 40e01f88dd113c3120686c11da1c4cf4ee77c8db315b21cc936c3ccfb42cad4949e207298ec6d78d03327ff05122fcd75ac82d5e7cdc9698d4bbf1f72b19756a
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+gnuastro-checksum = f777f84d03cc106a12373416ec3617e4c598f7642f6ebf881fd59a3068c8b4cd5ba98195c1e154a4a37d3b22828b618e5ac70157c2775d11032b7e061880aa2d
 gperf-checksum = 854cdb24337f14b0d4199cc97c4a1d2ec7f953ad8125a47a932d93f79bdc067e2de231859ac0e842f14b1a8d80c5606fdc2c295a370df5e85ea15023b478805b
 gsl-checksum = 9a46b431eed536182f31e1ecad781ade214ac8bd885ac88bbfd02b6e08482c294775a529e561d358c1f0211d8d20db4ec99b448b9006c3bf7599c076d3fbbcc3
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@@ -138,9 +138,9 @@ sextractor-checksum = 4035710f9b8a20a0bb1a3913dab2dadd8444c179bf6dee425e0e8bb66a
 swarp-checksum = 810af6ea0a2dfc7b78b0f6aaa486b80c29f517b90c29f5037d05f31f761e96a55c8b5dcc259e1b435b25f45f01dac45ddba61da84000a69676cce119880bb05d
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