From 890858795fd6e0c8c1f3050adec7f4bc78e9e47c Mon Sep 17 00:00:00 2001
From: Giacomo Lorenzetti <glorenzetti@cefca.es>
Date: Tue, 21 Jan 2025 18:57:10 +0100
Subject: IMPORTANT: 73 software upgrades and added offline mode

Summary: This is a software update to make Maneage more portable and up to
date. It does not involve any Maneage infrastructure changes. You should
just re-build your project to make sure the updated software haven't
removed/changed any of their features that you were using.

Until now, the software in Maneage had not been updated for almost 2.5
years (since August 2022) and were starting to get dated! Also, when no
internet is available (for example in a HPC), the Zenodo check would always
cause a crash and needed to be commented manually.

With this commit, all the basic software that had been updated as well as
the dependencies of Gnuastro (which we commit to maintaining) have been
updated after a check of their webpage (see the full list below). To fix
the offline issue, a new '--offline' option has been added to the project
script. The other following changes were made:

 - tarball-prepare: has become more resilient (for dealing with file name
   with spaces or Lzip, which should not be compressed).

 - Readme: improve documentation when used in Docker.

Below you can see the list of basic software that have been updated. The
only basic software that have not been updated upstream since the previous
Maneage software update are 'bison', 'flock', 'm4', 'pkgconfig', 'unzip'
and 'zip'.

    bash                5.2-rc2            5.2.37
    binutils            2.39               2.43.1
    coreutils           9.1                9.6
    curl                7.84.0             8.11.1
    dash                0.5.11-057cd65     0.5.12
    diffutils           3.8                3.10
    file                5.42               5.46
    findutils           4.9.0              4.10.0
    gawk                5.1.1              5.3.1
    gcc                 12.1.0             14.2.0
    gettext             0.21               0.23.1
    git                 2.37.1             2.48.1
    gmp                 6.2.1              6.3.0
    grep                3.7                3.11
    gzip                1.12               1.13
    help2man            1.49.2             1.49.3
    isl                 0.24               0.27
    less                590                668
    libiconv            1.17               1.18
    libtool             2.4.7              2.5.4
    libunistring        1.0                1.3
    libxml2             2.9.12             2.13.5
    lzip                1.23               1.25
    make                4.3                4.4.1
    mpc                 1.2.1              1.3.1
    mpfr                4.1.0              4.2.1
    nano                6.4                8.3
    ncurses             6.3                6.5
    openssl             3.0.5              3.4.0
    perl                5.36.0             5.40.1
    podlators           4.14               6.0.2
    readline            8.2-rc2            8.2.13
    sed                 4.8                4.9
    tar                 1.34               1.35
    texinfo             6.8                7.2
    wget                1.21.2             1.25.0
    which               2.21               2.23
    xz                  5.2.5              5.6.3
    zlib                1.2.11             1.3.1

The high-level software that have been updated.

    autoconf            2.71               2.72
    automake            1.16.5             1.17
    cfitsio             4.1.0              4.5.0
    cmake               3.24.0             3.31.5
    expat               2.4.1              2.6.4
    fontconfig          2.14.0             2.16.0
    freetype            2.11.0             2.13.3
    ghostscript         9.56.1             10.04.0
    gnuastro            0.18               0.23
    gsl                 2.7                2.8
    libffi              3.4.2              3.4.7
    libgit2             1.3.0              1.9.0
    libice              1.0.10             1.1.2
    libidn              1.38               1.42
    libjpeg             9e                 9f
    libpaper            1.1.28             1.1.29
    libpng              1.6.37             1.6.46
    libpthread-stubs    0.4                0.5
    libsm               1.2.3              1.2.5
    libtiff             4.4.0              4.7.0
    libxau              1.0.9              1.0.12
    libxcb              1.15               1.17
    libxdmcp            1.1.3              1.1.5
    libxext             1.3.4              1.3.6
    libxt               1.2.1              1.3.1
    python              3.10.6             3.13.12
    util-macros         1.19.3             1.20.2
    wcslib              7.11               8.4
    xcb-proto           1.15               1.17
    xorgproto           2022.1             2024.1
    xtrans              1.4.0              1.5.2
---
 reproduce/software/config/checksums.conf    | 144 ++++++++++++++--------------
 reproduce/software/config/urls.conf         |  11 ++-
 reproduce/software/config/versions.conf     | 144 ++++++++++++++--------------
 reproduce/software/make/basic.mk            |   2 +-
 reproduce/software/make/high-level.mk       |  46 ++++++---
 reproduce/software/make/python.mk           |  18 ++--
 reproduce/software/make/xorg.mk             |   2 +-
 reproduce/software/shell/configure.sh       |   5 +-
 reproduce/software/shell/tarball-prepare.sh |  26 +++--
 9 files changed, 217 insertions(+), 181 deletions(-)

(limited to 'reproduce')

diff --git a/reproduce/software/config/checksums.conf b/reproduce/software/config/checksums.conf
index 1a81ef1..01ef8c8 100644
--- a/reproduce/software/config/checksums.conf
+++ b/reproduce/software/config/checksums.conf
@@ -15,53 +15,53 @@
 
 # Basic/low-level programs and libraires (installed in any case)
 # --------------------------------------------------------------
-bash-checksum = 2ce67af3ff6b6c9d87b2e98986da937ee100a4cecefd50f01ccdbaeb53e45ff80b1e84d5861619dd3058259223a1f0748e5850aa2dab13b3350fb8a955c3024e
-binutils-checksum = 028c64a9ac34def97ddb4ead355776999c4e3376857e865c536ed74593292437f5bd2049c036a506129f596ba78898b0cefec5c677b6cd76e7d18dfac9c64a33
+bash-checksum = 52fa7d14e5f05d7b1b5f64ca110388db119fd6b8d4cc25011e0e25848491507e610259091c56f3ca7a7688ee2547f8a98de2005626b35c29558e71f28e29b848
+binutils-checksum = efbc5957bd22804a860261886598778347e82f9cbc0728d21d26748b7296e34328fdc16252868169594a001a301babbcd0964d9c508523736bc79cac2aff8efc
 bzip2-checksum = 929cb1b2d0db8a505e2bafe3ce2c893c8f132dd617c0110e86e19f116b570a85de3c8a635483b530456fc8f8b6698c8190d21313e47607f442807b10489ac86e
-cert-checksum = 25b689ebac01ebde136bcef1ef4aa18389fcc618375755001f153b37060cfb327fd6d6afac25d4ddfcf78fd6678fa00ce49ba688e725e4a4c657c37cba4ec3ca
-coreutils-checksum = 887ca0ea9e6918c9e959033e625537335902a118af8384a050bbdfadf1c7fa30a92521dd4d9714055d869c1619c20f0f6bcecb89a99f22278a74668b393a5cf0
-curl-checksum = 9158e35f1f8bee8236df933b0011bc1865bcf10182725b9578824abbfa9cc4dc1e468ab97a5c30bb791cba23e224e395189a6a70b314a500dac1222e4bf21908
-dash-checksum = 794290f8270f05a134966088af5a7f5abd5c7a06e7057108aa49ad18af43643a038cd926192b81cfc9169d9d419b03c9e815483936bbaf102fe7a462f84f358d
-diffutils-checksum = 597cd0a14087722b78469e2238fcee25e78108f53ca43fbff1194d87625b4c7498a205f68c7bb44fcd437b8d642bba263ac40170780aede006076b11956fd06e
-file-checksum = 22acda3d760fa19f94c67086ae5ea8243afbc896be10d3905b92610fe58cdc5954ce4f6756a2cc2a2c241572c37a56b4d6813b14a37f51d718314c6dc9b201fb
-findutils-checksum = 8f1887781e3f97aec1144dbda6da9590489ffb7dd28e47a5c574c0382398988f015a6f4364b90a66a9e35b3c0e79d8a71c573402b3f95f7f9482f2d47687a4a9
+certpem-checksum = d1198511bf1f61a624691c182ecdd57ff468030a4af8b0f0ef248a5ce1f42ed883c684fc5aafdd791d5d3aa24504fbfbab11043231594b1c4e21fdb7247e5a33
+coreutils-checksum = 2afaee98b305f000ab1c9e25b5fec6413c3e385c685f2afe94e3676593c09efca39d007cfda2b3b122e68e94204d2ebe7f50b39300899d8720518d6f74bce019
+curl-checksum = f391f696d725ace63271fe614ab3067b8d55d04be3a160c70bbca388de93670e5fb986dd5dd45e1b62c0327b2b1374ab229bdb5c9df746f70823e0721c9f048d
+dash-checksum = f21a2ac71606a5ae8dbda5639d111f385cc44c357c580a83e453b33faa32c92fd83f8ca6c5d2cf720343f8ab1cfec247ca499596f78ee19f62d67cd1d7ae0c69
+diffutils-checksum = 52582c860a4ce544f0c1a3e61bd9a1ce5f13e1c677b67d3713982439760e40b60267b222de3ef0a27065652822d9880a206899528d7ff8d60c7e64b64721b3e1
+file-checksum = b843b3c25656e8dec52e64eed6f581b29faf36540e0604a803d61c0f0eca830a01a947b81970b0d8a24a1336a37ae5c96bb2ade59daa16c544b1e82fc7db24e8
+findutils-checksum = 826c643e7f5c5d6976a47eabcd9807e51350d09ee8fc7dc931f2d9276f938f65aa0bd97e6213aa979742234784c120e1a6850a52207c327e1c1a465feb374053
 flock-checksum = f711815035e21b46572bf80e730a55822e5abf4cb29749e476ee6cf4d5027e9a7deeacf5f6b8c37f18f17a0cc7a6d98fb0be3936e97b122707f1cb2306d1e1d9
-gawk-checksum = 60a9fb36e57c0819576f5b2e48b0cf82210dd0cc45f65529c15d53ae66f8d0674929434bd7ed6fa4beaafc81c6b0ccd8c56d21b5326f7b03dcf958cafca03c3a
-gcc-checksum = be8a7e21fb7ee3be80b814708d6ffb63093fa103a51eb736b3717ac506ed4afcc7571bfe0d475f072e82bed439225d20c07e5d1bbf449a9bc4e10b82e4d8dead
-gettext-checksum = f3083af79341bfdc849118333c1598812c12bc225d998181694648187088050160deb4777c252f72a7158e914c2967416489bc6167ef8505664497f2fb94ecbf
-git-checksum = 2ade8fe6e9bbc88ebfe72348b13e7c68acbd066dfd6bcdd0de4949ec22aa25d02246efb25e7a7868eef1739c8e8cc7bb73c4caffe0060046bbf738f601eac2a7
-gmp-checksum = 2bec8840bceaeac542ce1f7870d5b971b631b055b49751ba4f78f98229d7eb9cd97c0a668f6d7cf81a53bf0b3d5d70e682af523f8f0eee0d7390727ff2bbb271
-grep-checksum = e8c28da23fcef11825c54794b3eebffd0eaf84b7ebf5e187fd06b5d4aeff2af1ac097f0166151b3f11f332dc72abf6097188d578f549496f4c7c96ccf479a61e
-gzip-checksum = 43bfed5da4f376f9ee295fb505648e364bd85d38c22f0de79024e5fd2b7e341f7fef8fed0d49a0f0484164fb5c6ce02b1b1951891807bc2b50e1a3e8f7990548
-isl-checksum = e257c19d861da6615c0be303bd8800d5e1a1c71595126da573c7a8d91fea6c41b9cacc2378caf5272949c6719c8835584a6c7fd05246bf4ffe56031543f648e3
-less-checksum = 31f733ecf4170b4f5dcf467b902d0753833f852739b03bf611137aea3672c03e00e9418fd5e289e82624c2dd42b0de06cb65a7a637dae78e7647e5c6ecf9fb57
-libiconv-checksum = 01e1b073ae6a82320d8759c973ca27c217377f2afd7a27f52f944d1d6e9079e407a7a4d2352f6b38541e49a85cb27dd39ce2f5f74f44ff42775901cda72e1159
-libtool-checksum = e0bdf6194e77beff0273a487b6345a0707addf1c7f57c35663550c5ef6f41dfcadaaac9df30ada639f5c066fa17a4ce7155bbfc0c920e1a1eadd55dae8183754
-libunistring-checksum = f1e92717fc043c2d7c454e44700559b0bd75457fdf3da5e803d9d58d8ebdff261bc73f380f6350bb04ce04071687c0317d09b4e8615003187948be1cd4d0bab3
-libxml2-checksum = 0fdc16aa7536adfe1deaadd19cdc20101dd3b081bd0a2e59d8ecc2965b2ef4c30d2e2447ab5b0cdb861c57ddb89ace1bd4ce120d9436b751b37724a90981ba8c
-lzip-checksum = 9b18ab9b7ef9a7d1c2da06b48fd018399e94405a5ada457885b778c59caa3faed0e73e1da398516621dc9e721587785b57ef1f8a12c1b0e116ebce5129f0f24d
+gawk-checksum = 13cb59a4ef43e5b0d10f13263dcf5ccd72d9344f3ecc512589ed7f6d059baf8a5ae375d38f7654695e29f0694fc33deba3c7c008d61f09e67df57bf81e573f0c
+gcc-checksum = 40f239730fc0165a0ef48f252a886e9cbe7a95ed53fe2c7a16531d7f3d6faabecb2d868cc895a25f7561e7bb90892e3372652953efd8ac35359a6ac2e18a4447
+gettext-checksum = c53f3a09cbb62a3ba8870f1310da336c084bfc83534d7e9c236f7660f503d638654a91301558f1e4880ead2d629dcd92f7c3dd7e0d981d445b74215d836d19ea
+git-checksum = 6e7ac2188cf3204fceeebffc46f34a8180e53a887987a8e1b9d6c90f84073e4b86d45f39488f69432b1cd0962cd8fbd434c07128fc2e430cd2ec20f1a1fc8b61
+gmp-checksum = ad65de00ecb46cf454ed6c40d2a57ce2528f5fa64df1284dfa15036f1e8cf27760a09a4ecdfcc39048faffb71339bba30d99dd365c54173dbc2ba629bee2fad9
+grep-checksum = b1ad850671290120ca0ced6d1744622d99a903c6e638dd231e89a70a2ab48c382100e218697b6fbbbda8c99316679a7c681383a5e954790bbffb9719bd0d6d8e
+gzip-checksum = 19ef6f51ee8274c08aa188ebd26634a40f91c057ff1ad3253719a7fa0c7ac857de5cf289990e0b9fc67d89ca3abb50db6dbaa7664d2c58275c844712834d5e10
+isl-checksum = 615827a86e809c9645e090786008f8b37d7efc7fee6501ff81e937a299a5a72e7998a3965457d1380cb04f7e765b600276d87b7b59cae22d82aa65e71294f499
+less-checksum = 3b52347e1b779a52c89cb18da85a0963eed500e1e94cd3952c0693c56fd0eec4e8606eb02053d451ac92ec8c6e196edd1341eac54515ed84483112513f41f210
+libiconv-checksum = 1f33fcf7f617990812a26e15092dbb2f9e81400cee117eefd40ade813f7ca17c0b9a50a7a9881b4ab0b9c0be8475528204c347d940cbc667a918570e0bde051a
+libtool-checksum = 2aa6d535b4d644393d7ca5c8f174b09923dbdb50d947ba40917aad75c8cecf957fec7a54717bd3670c44130331b1f08fae3694e32c79c8e187c31e909b3d401b
+libunistring-checksum = 6ca6a2dea2c09b6e8e63eb7ff73ab62b2e2f7c412766209c9f6da5b13a109e3a7cb41e67aaee1fb2b46549965b7df13c508000e40594570abe71819dc9cc2eaf
+libxml2-checksum = 7c2c65ae5017be5d695ec5a0e9bf443fe130d33beec97f31bcdbe74c22ac7745ce02524ca603e701035576bdca91c4cb1cbe67ccad5525f9a4566451a8f0c935
+lzip-checksum = 513b7ecdee1d6f12298cbbb025286c887c5e6588e1268b489735955f822a8e305e7a8d4d06054a77b2f4c40f8d82e9e6d779cd73d4227ca3cdfe4002b9e42a98
 m4-checksum = 7f8845f99e64d6a45859b9d80b03352a5526b3de0311ca4d6dd6850e504d26dfc90cd21d1640b10382f786213f8fdf20183bff424b3c41ea11432315993ab829
-make-checksum = ddf0fdcb9ee1b182ef294c5da70c1275288c99bef60e63a25c0abed2ddd44aba1770be4aab1db8cac81e5f624576f2127c5d825a1824e1c7a49df4f16445526b
-mpc-checksum = 85e044749c2a001a70af2c11fc4bac58709ca7df11bf6da3b03cca852ef336eb37c4fb1dafdffde2d13df35caa7c296a7cba19a4625b82dc3cccc5066ac95774
-mpfr-checksum = 23a30040511809b6a8ed33d5ef83f903e987f0e4b8e87c9bfa627fdf0ca6400330bda4fd727cf1d37f04f7804c77663ed983c6b5ed26f5d5bd772bf13f1f9eb5
-nano-checksum = 0995899c5bae17411461870d5a5fc61da43679938cd2bf909ae96a0e3ecd3f47319f57397983ef53abe076c34147ec77eb87de0167ce17d1933fddd95983e0a9
-ncurses-checksum = 68b7c0388304791ce82ab86ea5c5725357f07bbae0c230af3e4722f75617778b6e28d1f0c1d65871379670e54fcc96ecd54f529a3462d207f3d930e6dad5a2dd
-openssl-checksum = 722588b8d9f8b7a1c607475f441c47a7097b12f1885a471767424c7509103589a9e2647b5da35f5218fac6edee5c7946e4f2eb6962b434b14142330cf7403ef1
+make-checksum = 154a0247297a7b0131ff63fa8636d651b33aacc8f4a0dad1db176995b20c2039f4fd58eeb2ec27cc0ca7a95c1853199a4ee35a14afc5084995ecc1d694203412
+mpc-checksum = 76e0720e6287d8b7a3eaa09dc5baa5a2b61dde88198c9e1bc9c458a268a44035d11fbab1c8019501a7ee2d5745c7eddfb0bb3c7297110a0fd9e027acb42d0fc3
+mpfr-checksum = c6013b0f573271a3bc41bc3eb28c61f099c6fc5409096a27624b5ec049e6305a1c48275c6f244d0cbe1fe65f649704c7d5f6487ad24308f6b3becc17032fc222
+nano-checksum = e559c09057ff75cd650f02744dff801750a159785234189e48f976bb4ab90142aca2577a283f80d8eecdc4f2b6c0a55bfe6da69e6aaecc5812f32f923075ca9c
+ncurses-checksum = c94eccc1b23a9c6ca9b27881674b19802942802cf21084bd80e45e0b9e50a2d99e0e18a1ecd5cf3e686949982ca93132a7fe2f117a7c4307283db5012b11a2d5
+openssl-checksum = c4c44ab8e4a6d39e6aa69b096a831645c33d5675619d31da6e441452f67e487489b33041a34038a0f8ad596506e17ce8695a8f87bae861700481ecf6b9742b76
 patchelf-checksum = f74409c00e7e50a88590267fa0c173f71239f1471985792f7bcdab750d202a9a25383c015987608bbcd6ace5b3642645d46dba63199ba54fabbcb51ae7fca8f6
-perl-checksum = 0cb49a0891ed0b8963093556af232b424d97eea5af659b00a6781c1de446da730a318c5d75d1d8cb7d7572cd4adb1423e4b9019bad96aa17da0de28a19f36399
+perl-checksum = d53da403f2232b487f11df4b0b889babf58350715c7430515ba32e2e7d9996308c5d75ee626906a9f3c56872672c9cfe3880e10c7bb084c178c7c76bb2a5346f
 pkgconfig-checksum = c37ab9336ac15a73bf5a23101f3fd8a04810f39b0679634e420e5d7bbd60a80cfc919122694cf83965beb071d2780681efc8d954ce99d77eb235a4dc7497e250
-podlators-checksum = c653205fd1e8e570750584cdb3a813a1250ae6f66d4e654b3521b80052867a3a6ba15ad3d7c8a22065f1febc36175257f9b5685570fcf0a87908c2dc9d42cb3d
-readline-checksum = e7afacba7da0ec0f98c5cfd1a25873a1803c1beee9f8b2bb603844415466e9406512b69e1624412be3a48dc49ed048433599b0f9693986a5253debbc5631e0ae
-sed-checksum = 90d8fa16b2570baee061c128d6db688a3354796a6499014f12dc4c5966b34cbb8a04a47914e4ff8dc1815444ad0235565efef2a327b67c485e3324c2a1d07d78
-tar-checksum = 98d938d76a55dca1d1ba9a13f1aa2a3e8ae25ea422843e93daab98d373f4a72eebf052c88c87122ac16ed629863dc3fdb86dddf18d3ab5a2565b06f49b7d02bd
-texinfo-checksum = 6a706bd0f973b9bbe4fdbc3bfd475cc9699eb410d276cbc19a73255924313006e1b80a87803fa30f7245e3fcb610c829da31e38c91e791e19f11ca8b998914c4
+podlators-checksum = 2e1e8547b0c890101a9fb8d80807b164a0a708820617a6826127930f85115285a0e4d62ddf8ce2401df14c021521a1b3ce0cad0d308e08f7b3d0c49d1b0dd36f
+readline-checksum = ca08305c5a6d5eb6656a7cdff73aab65c1234de62db8da90335e9ea140b1d4f8a867204bdc49ead3acc5e5236358130e73032bd73de5dfe1eee5bb2c76be5cb2
+sed-checksum = e801dacce45a08671e65897f85be0a37a29d97f61e846ca17ff870d3ab9f5a639dba73457491087ff637df4a81099b864d2496d59acf17a07916b43bfe0ae480
+tar-checksum = f8d0b543dc4a2a57d61d8a183d7a64d611d11f033c64683f022a7f1f956d352d364a959903a2549ab1256c1a068de51052960cf34a70f355b80e237f654bfac7
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 unzip-checksum = 5c1f3c417d5feed64b8c5dbc26b51dd84130b9ea43d77e810cc9e82cee6e965fa76e2636e5ba11a029eae3454a815a6081cc2828079fa3994c511d555b82f12c
 valgrind-checksum = a99e09e6d957ce435e64f4ce7b1a14e7e266282578171ce4e3bb3f405ce304e4df3b43d2fca59a6024c176f60c2ac82b3992afc810386e8de03c72f262b32702
-wget-checksum = cbce817981864d4dc424b330126b0d06231907004f1fcfc8d105ffc043bab59e93421738d36cf95013cc03b5b9f9813b1c242a3ef3926a907889ca78dfb336d4
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-xz-checksum = a92bc2619f668a9e462945423035a090bc91c010d0788db8fb300851a3f93c04af2d433bc545195979d51312f59667c5814e46dd711b67fa8f89c0864873b81c
+wget-checksum = 75ba60150baf673def8ff5f2688af57d89d699f1b5105cb1a6bc0ce88778be191c74757665d773ac84fdab975851ca9015b30f12f31877fd752500efb49e0034
+which-checksum = cbda59450d35c2fa04f9072db43584ff745844cdb129bce1a382eb50bcd19815f0bbf12f2b03f748cb3f585acf0a16eb2e661b71f9066469236d28e9fa40f168
+xz-checksum = d897a55ae5ee7d778c68edff83c53e6624619f233acd529439fade305681d07b7665ba1d370cf84abb38c7f3f8f88c3d127974c4f59667843814211802501080
 zip-checksum = 433eda6a27074746a960952fa3b08028d5ba43fe976a1306dbace9209be5f89aa0554b17bba5815cd00984c0f64559c5fa0b754b620f6d646a2b145a8b599acc
-zlib-checksum = 97493906504451830655b300b4144deeeb9f41bdb9b3f3a3d5635c2b16bf90d543841dc70d028f1cee6b52ad1c604fdc18b18f559d1e4ed6523e6b3ce76fd8c5
+zlib-checksum = 8f0b28c7d0d5d1906c2c03586f4ad3188a7c7eb73d25295a7acaa88cdf87b7c82ac609282b9b12d2b4d5a368169e4bb5f88ba3b840b57e1cf32c78f2ee3ecd86
 
 
 
@@ -79,44 +79,44 @@ apr-checksum = d0ddf8b10dd8d3a831b94e541d387414cc4d507ad48ff752d3274fb808afe6628
 apr-util-checksum = 6589948e3f9daf4ecd700bdbd2053fcb83005cec9d339278dda067996ba696e4a947116f066cee03214458aa15e0cb6f0df0103e7bc6f8f32327722eb7265f35
 astrometrynet-checksum = 33bf92ec1d5aad50525739f5afb3abd2abe27c8b0cce35a6923831b7b7c35930cb6f14425df47c60dc5561cd27b4af55ea6ccdabaa2d444c81a6c86c7ef9629c
 atlas-checksum = 13634a63c686800bef8affcf4e8f5f89d08f485fc557eb1b9ba51a405926014e659e439268f655984bb7f59ffe497d594cd7a607103826f1046325d89796e1b0
-autoconf-checksum = daf3d17178d8c2d0f872a50217ba4d8a1481bad7e70ee5a58c5599717a01209cbd58e6149c72f6c4829b96dcf602bcfb828d47e32a9cfe3e5710c45f4f1736e7
-automake-checksum = 728284b89ab4607b5de5db6b8bf5ad8730cbd8ac094f583b93bb92c59dee35e021e823cddd412b0507b18a12cbbbfbec0fb0447c23d0afd167769641fe0755e5
+autoconf-checksum = 99edec992950b85f7709323247772d1ec0f6ebfd2b066d83af65e856e8ab2facfab257f43d316fc5a8905fec0ce3c24768afd2873a1b85c795c8c120ae5f9277
+automake-checksum = f4b6485c7358554860b370d587bb5cd6c6c1050529eceb2bb0a0aecd408347405b3d1aa2c63e4a0aa38dc394178ea1e05599f1b5b6951c0e3d8f2f85639ffc71
 bison-checksum = 08c3e9bcf9fc01bc8b3a6c5e5f8ecdf628e07d6ce0874341e9df6d7b2925db7720a29b3be9a98d644f05a9e55e1130e5d182cb764e1481891414df93aeb2794f
 boost-checksum = cc7b78311538d6e8a6849d58da3b4d3062dc6b816f91a06b86609e6f1538d87ef9308c27af4db7a644e7c8e2b3de73c9f011a739e75262a0f36affdc313947f3
 cairo-checksum = 5de8528196b450d01da5cd4562dec0dd8c31028b77640b6c611172f7c5ad1dc9a4d30bd4e38259344c3ee42b979e29be702a3190aae5fbf47c82c79ee0c14a8e
 cdsclient-checksum = 24584eedeb84ab4666cbd2ed0b7264c92c63c9cf090595b75b01dd46f848419d6a7e5cff4db3946695f879d0ee2bfbeb527e88c2be85e769b577302d9b2ad2b7
-cfitsio-checksum = 18dcaec9907c0d6d09c28a1238b0ab1425268aa6c83ca163a2ea8df404cc8fcaa5b9a5b17ed585d415d56ee9a2647b0cfcd6e03da91a1a2f75cf0db530287270
-cmake-checksum = 7587ff2bc7f0d75e4a19798081d13f10545fc49fdf06e913fd1606db2056204471f3536c0e2c46924013c4d64ff1f4e0422eff5dd6b911bce65c01e8510d24be
+cfitsio-checksum = fd40e0cec22bf3a35a7c48ad61a6ebad5a54d3230606c7492161c067b7ccd303ed34d149427bf1d3365e7a3082d89b51df46fc8a9c3d3c0b1eef8756374d711e
+cmake-checksum = 3904964eeb256ae4443d000a24ebdbfd76c677aec08d006f8665020f1ebf2008c65b6a1cffd6fb5b8a29cdb52420415ed2e0e2ea258db2e9888dc48068fc3941
 eigen-checksum = 39c1944e0daca50bb01e929edc98e2bfc234accb30ca019dcccfc7b02db5cc81035592be219ae93cc3ec16fe0255e7e4d1f29ca2ad3dfee7e63546c47cb2f807
 emacs-checksum = 91313dced8cd74f9e4a996eef42806aad00fb2576fc77b3694bb7b670624b6a1551ff49c2a3326dbeeba916e5732ca5975b5dc40b3b063f6e73a22839009abe9
-expat-checksum = 526f2ec03978f853ff76a911b5a168f58a7eac83b8405536afe2a6acf4611ebcb96acbc5df809fd18e4edeb7ca5059a3ce56dcbd12cb33eecf742c6361d83d19
+expat-checksum = c006dff4ee90ee3722df94ef227cfaab3ee4ebf7ee8193a65b904798b4d185e89c863c75a1e8eae9c120bfbf79336c1e31a8b6aa3042f4131b9a1eb0e97c6643
 fftw-checksum = 28bd2f620399a415181027d30d7ea193aa487c7a277c9943d0051488908fd87e2731de0dfc3bebd22a6121d1deaa46037be8296a8a9cdb711f9fde4510c3d368
 flex-checksum = a18e0dcdd21bd51779fd70e5efc2d77fa7b2a56d4d0e929d8abb437f86d7fcfa2cd09b8268185698200866dac8bec4444c5a7cff3140c515eaa49fc77c5aea66
-freetype-checksum = b3c7289cda3f89fa6e51143f2d1f1c82fa34808d0caa9262e7be5498c8f0fdb14e88d31ec9928e3add71f03208e40adb2fa94c2a4b4c6b7bfb81daf64b1578cb
+freetype-checksum = fb2d89421633a56d4276b192106d930c9f29cf2b70c52d9e13ba0c6a2679b6f69c20ab9f14480522992c263b493f198f24593bdeddb5806a4d801ab7604a5926
 gdb-checksum = 4afd6660d2bbc4c48ce726062fb42217bdaa5974774407358b2624036a2ace48ed853746e4d6b83b9a409cd8fefc622b0727c79da8826e28e3d1444fa3a9d148
-ghostscript-checksum = b8ca229c118bd29f0fadb87a65975011d793d8245652eb7e2d2cc1c0e90be1d545b0bfc216703766e35aedd096a1c3ddb6ad9ed8d3c71efa0a9f9904a524e903
+ghostscript-checksum = 2d6422d434cbe6612d4e995022322e17d0167d0d92fe1f6fe122da73558a81fa43025458411e38363a0e30a573cbc6cf997ae7aa562501787d0af88bf1b5b387
 ghostscript-fonts-gnu-checksum = d8de17e5d920bd3803ecdc07aca224fa5b9a26db847ddae0ecc79488dc3e867ab3155a8565f20df7855e5228bc7f36a549b082ba0b8b56c9b948d6cfb655fdc0
 ghostscript-fonts-std-checksum = 40e01f88dd113c3120686c11da1c4cf4ee77c8db315b21cc936c3ccfb42cad4949e207298ec6d78d03327ff05122fcd75ac82d5e7cdc9698d4bbf1f72b19756a
-gnuastro-checksum = 3af26ab271d0015642e7290c96899f433c24ae93685fff3dddcef697acf590981da03a7c598b01f31ff042ec99fc4e4759a5622af73bb6ee989c3c2060be7936
+gnuastro-checksum = d27399993ab65d1864c915fe107efb298c758e1f24e3f300830f8f120768dd3a54daea1d2af5537e9dd3b50a13a51edd237f434bfbb442ab992828b2dab1386a
 gperf-checksum = 854cdb24337f14b0d4199cc97c4a1d2ec7f953ad8125a47a932d93f79bdc067e2de231859ac0e842f14b1a8d80c5606fdc2c295a370df5e85ea15023b478805b
-gsl-checksum = f9b92ef783d922f97fa40e934314648c627002e0b5c8067e6ca9b691cfacd6363efe68216db75ae1a093053c7aa6b56fda2769bd2e10b2c3a373339d7a0fc9c5
+gsl-checksum = 9a46b431eed536182f31e1ecad781ade214ac8bd885ac88bbfd02b6e08482c294775a529e561d358c1f0211d8d20db4ec99b448b9006c3bf7599c076d3fbbcc3
 hdf5-checksum = 58d6d9a1c201efa0863d9c31d189b4d40b1a9b1fb1ab9cb3fdeb4463f508c043e467aa4d44484c2af111d4e2fb775223286da69568774e6edef285208290c67b
 healpix-checksum = c11949e92aae9919fd41de91cbab72beffe2519c1203ab153ba217c6b6c81f2c10ceb07b683da0d04fb53ef5c80a9b208bdbb5379f379b7da9d0611d2430cc8e
-help2man-checksum = 94346bed1c6b4f41384a216af55464ee142a47c40fa9d2dcc8bd86a4ecd64afb4ee7c1a06efbc9c6c7f4f275936dc21840ead193a8cc45840808d6d361be5e3d
+help2man-checksum = 83dca38c2020c85a66da882cd994b4e291eb6a0584149b7b3a74fec1444399ec5ecfc6296080fbc34071cd9f8ec5c931e249fde1f755c7f40930cecafb3efab0
 icu-checksum = ab14b52a3fdf2dcde6b5160ab7218eac381b850d3c278324379741c49d71fa6040fbacca94c6937e6c9fc15843761121deff302ca6854da5ca1cd5b26a34e839
 imagemagick-checksum = 2132614540b7422c9772fcebe7e8e358994efcfb53d8e48fa52992313b09b191847e395bad305322c377a4697014353bb8c15adc4edfd712e038504fc7f17c5e
 imfit-checksum = 15edd2349232c1c8e611b31d3a46b0700112d274515f54d0a0085bb4bfa6d3d5f8a15cd926516e043a29ce841accf3534ae58dbfb952d858dc9445199c957096
 lapack-checksum = ff670e194a1d8c998f05e6143e01a09e6b43176c511217ea3c77742afd9f2566251c50fc23aeb916442401f7118c1d1fe21f0172382a7f4f2c516c1d7d873e24
 libbsd-checksum = 5c7d98474000af1271a36ab769e54aba41578e0b0f06e47af2986d6821b6586ac430ec04cc51b7836823834dd9d0aec9f4ab3af088b94f963b89729fa2cc95d8
-libffi-checksum = 6a4d46567512c3ce69a11c8d01fa0397cf653ea6207b5a86192a52367006f0f27fc08b9ae3559ef45da69433c7c39818199b29ac06bc2c7dc0fafefe7ae7b32d
-libgit2-checksum = 7db8792f4280c484e324aa0f862714cd2ff3ea5c93aaf6953b08f9f2d7423e742d78f6fad11b5e5823747c81188e12432f247ee99dfaf331e4ce293713904ab2
-libidn-checksum = 8606bbdacc48b7fd572104896615acf0ca88f7c11a60c9eafc2ddb8477110a1f62c5684dbd5adf45b6417d9fc04a46add26052f63e464a81b3f4192443d13447
-libjpeg-checksum = 420397a802d81aac7c093aa056bd306f4c617a1deaa42b75179b9497da90568d560624e5423675030fcade69fa2cbca5203060e9fe9f0ef67e5025926b2e1dbc
+libffi-checksum = 027416da7066bd36ac0c9ed8228693e5eeeb5e11dc17afcd7ed7faa66a9e57f505e94dffaf18f8978e6b40964938d4289aa3b5fe8778abe8fb97a68138b8b120
+libgit2-checksum = dd8a2acb214a2f6ba05a0a51a05fa7c04e09f482fe166a6d74f072c8335f23a1bbd3358395c3fa6cbb0811369940be26e3463f9c8fe48d70fce062b69ac996b2
+libidn-checksum = 0ffb80ca195ef0b1b4aec7bb45499d64fbf6b45eb0f68c4ea83193148dc3e761a0098d996722c2ac6e54f18d25057fa8c54b55a9d15593924eb733a30cf8137c
+libjpeg-checksum = 312b0abf986dc937d57dad31b49472258cb6175f9dbc8796a67ed0971a4410bba40d87fae136e42677521dc14df376771982f9acdccf5143ac7edc9d2e91a34d
 libmd-checksum = a598b61dcbd7c3daf25a4affccfcdb2f6d58a0d2057b4f24e8fb92cddbeb0d62f1f5e3dd55195dd83be405d187184a331ea080b936b6c336ad4271be03b0beb0
 libnsl-checksum = a3c8f674357674b7ed4b26c05adde607f39be8d6dc9ff715448e1fcc5fc23d11fbb4ce85a6e493b79bdb0bb450dc3ffb1fb480715779f738d7bc016fae91621d
-libpaper-checksum = e1f37dfbbcc467c2269e228fa71893fd6c4738e1fd6cf24ce6e2ded568cfeeed80da097e51e833aa48e4ab9e1be0a5c75f9f4cf8bf2f050214c85013e9c24043
-libpng-checksum = 8bf8aaccf4b9efe15a18f0c7a0a6a942eba7bcdbaf61313f50af7e04a237ccc12f380b53ed88e5efa2d20b13f1a0f9f365b6bd7824d32350b3b3d9c6fa63eef6
-libtiff-checksum = 4e0da3df4b853f2017d99f23c5ed83d9f0d20743ce4caaf2ab915fa2d392858a7a74f91b1fd8a00055d1e82e26a5eb165aec6411709ea66478dce16062ccb93e
+libpaper-checksum = 8532e5e95b53e0dcb2b2c4c161d3840a34087b5870d449950a853dc312a4016fb1443851385ddfaf4196ad3b2d431e0d861efe82e1a0442392c435c4455acd76
+libpng-checksum = c4eff9a427302c6f228b93a5a6b74d1e667439ce77f20c086d91ec6efa932a0e7f5752b976f4af5cd07574c5e4999c86e2b9cae3e82cc448ee61f3d0dde9253d
+libtiff-checksum = 72ce12ce317ab2a5c188d3aeb575004eacf890dcb2729e9cb46f73c15cde2132624b4e229539af01626e59ea6a4a7380b4b5f90d5fecad787197b8b901615d20
 libtirpc-checksum = bcb6b5c062c1301aa1246ec93ae0a5c1d221b8421126d020863517cb814b43ed038fb6c0c2faf4e68ff133b69abefe4f4d42bfc870671da6c27ca941a30b155a
 metastore-checksum = ac1230686535a652e95024abaf6c5585bdab36f4e092bee5fa4deff2a913cd60f3a6bd8020c6887ccab97f0da3a284a0d4619fad5464a269e7b2040d6f7e6aaf
 missfits-checksum = 32727f5eb30573a1cedacb8900e2536867e4815059eee32e64e3db65be9291b8a91b9f45b2c9f3cf6fc2a8cc448012ea3d502bdd9dee516008e17d5086aee795
@@ -128,7 +128,7 @@ patch-checksum = 75d4e1544484da12185418cd4a1571994398140a91ac606fa08dd067004187d
 pcre-checksum = abac4c4f9df9e61d7d7761a9c50843882611752e1df0842a54318f358c28f5953025eba2d78997d21ee690756b56cc9f1c04a5ed591dd60654cc78ba16d9ecfb
 pixman-checksum = 333732b99994f7ea636d647e0b6123075351b27601b5b6370c9bc821a1ab3921386ddb92b51e015f3fc35104ba09be1e0d7bef47f0b4f73036b01d1d70396dd9
 plplot-checksum = 2c5a36d84ebd948402c924d304427b5702bc75bdd22753c9b3b910b382dfdcc26910382aae452f02d86b25c1c813bbe1f40c9305de1d2809d575975f610fdf10
-python-checksum = b3d6b4187b31167b382e195037d7ca01d5e9c112fceb0f12a30c101dbcc91079601c01aa449f9d33d2fc53c795c33305e80c891e986a0e24cbecc14beaf90199
+python-checksum = de940d7eceee69b8a04f12c613753f61db53ddac1c5cde5388dd342e88a09bae8da1f56b71b96f20997f6203d169e92e9e2558c43b38dbc323221d7bb362abfc
 r-cran-checksum = 54cc07956a70c09b5a533188eb063d2a9dc67a8aa5648ec7f9c107f626220c9f6e17ab7175e65dd54a8d608a1ca4106c8ad2856709eb995ab66439b5f033e725
 rpcsvc-proto-checksum = c3011d7d7ef97a4a751f6921df1a23e1dd8ac50fb0690c759d37010ed7be27968a2130e3b8872cb48d5914216f9d539096a424f1ec38a75f7ed899748151c6f4
 scamp-checksum = c7a192f357c6808acd16d1c5d2657c5c8c2f61e4fecb8a4b18d39b07f4c444f85d5029c21571d41ec3ba9c8d075de8bd660b0e029bf5dd63e3819e963430a938
@@ -137,27 +137,27 @@ sextractor-checksum = 4035710f9b8a20a0bb1a3913dab2dadd8444c179bf6dee425e0e8bb66a
 swarp-checksum = 810af6ea0a2dfc7b78b0f6aaa486b80c29f517b90c29f5037d05f31f761e96a55c8b5dcc259e1b435b25f45f01dac45ddba61da84000a69676cce119880bb05d
 swig-checksum = ecb1d940f584c23df036a8f77288916003f861851dfdf836ddc5bc45b95312f9259150084191c1d9f086c006e64e12a4db22f7ea382fbb71667b811b8f99995d
 tides-checksum = c3360ff0d023b43749ba09a33302ca059f017a157b3ce7cdcf4f1a1578e90d3e7fa420077043adbee6b1ebf94bd698c8d6b279012f36d2a05b4de5351e30e108
-util-linux-checksum = 5f2534266a71cf61373d5b79f5a130191a06e5a3cc025982747be0d336b7ff60bded56cb1e0b42705f01dbd3ff8634928760554c53fef10045e68775c945854f
+util-linux-checksum = 9d421976a344f982f2bd910f0c888a7df4370a1e367c7d2582d03a58cb8500f1fe65cf6a7164c492a9ebd76bff04560c344b3a0f63ecdb372bfea2379b383030
 vim-checksum = 85d083fcf3638f2c3a049b88da46d569d6a250ae132f3821d440c07c4792befffc09e4235241ca96d7b0307a1bb96cd2222ac8a63fb41c6add8c2bdc6c17aabb
-wcslib-checksum = f2ee5b0b6aa8e6ef2923a85d0213e7d66c54b6cdee5c6843abc97436b699215479815db2766ae76af1f1bd6eef4f46cd8510dd87bae8272a4a7c770c32ab7535
+wcslib-checksum = cc72804611df1b0087faed2ec19edbc17352cc631559edc8ceb03792162837cdaa6bbf144897c69a58c9fab7e569a1958149be7eaea6552d72190406e4755d12
 xlsxio-checksum = 22870fda7bd4eefd5fea2a9ad7530c9049135129d9b69805091777e6b54b2fc6c3f0e69c6954f36bce54eebbfeccaf637cce9e271a593221a4296d6632470a6c
 yaml-checksum = dadd7d8e0d88b5ebab005e5d521d56d541580198aa497370966b98c904586e642a1cd4f3881094eb57624f218d50db77417bbfd0ffdce50340f011e35e8c4c02
 
 # Xorg related packages
-fontconfig-checksum = 4786b8419bdead24fe16cdb152b898d2676a59c534fd301f02e5343fd4fe54780fea06521e7c0bf45b794dbb08b0f17359eb5c6f1fe4e31d71dfd952c8fa3da2
-libice-checksum = 9e3488abaff115ac919e5df85479044579802b38a10597425e13466c22c149ef56a8adba77e2adbbcccb8d2e72e23976313f4af3dcee66128b768c971c513932
-libpthread-stubs-checksum = a99695c007e17d81879d5c113652c5e1edab2d63aac9b2984c4f334d85e2cebc1d0b4e8134d6196ed8eea4d4da41972fca27bb8a0c76c2946460f785233a2c03
-libsm-checksum = b9eec391f0438e85e32cf771afbb35bf215119ec31d9e31be40c1b653f2c3e894c2d19add0d6ff69e944d1230f681275e8abad86a8912ec37c1c41e0f1ce4d00
+fontconfig-checksum = e71c684ffcc75015b1aa13918d6598a213b926630317e4babf876fc503e0444ed3211277080a08505cc26da033ee8e673bf5e246cb9d75d2fbe18a43160a0dad
+libice-checksum = c38b5f14d8ac92c5c2507f4369a70c5e2738ee547765ea7a160fc6a0ebc217deb042bad65e16b76a1874ebd131eacc5f53e9630bded5ae1805a7c4c61ff5f357
+libpthread-stubs-checksum = 7895a95e4674fb0c4f206abf744818f58272597f0dd84480a1a217cb4358ff413d153f5e13f748867904e104cf26c43ff8d59a33e0f0a7cfaa81ee21d5d847fd
+libsm-checksum = 7b03a81ae81704ed97426e596849ec1209771f6ca4db296aedd7a698750b586cd56d149690922686c52c64c1c582672474fce00816dddca2c90ad9bded51a269
 libx11-checksum = c5ee35af06a90bfa0e9c5f42feea9887c5beb88960a7658f8465524a360e400a5640e5dcda741549d7ecf470e7142d3728a32659e12f95a316203655a408db42
-libxau-checksum = bdca8935aa1a52bcd2748004d26c7405725c18021a4d9a67604c98c1ec3957cc85b5d987d2fcd9fa4ae5e59b6bbd6ab75712beee2d448bd733a7e3ffeb18e62f
-libxcb-checksum = 85effa5ac6c158df2affbe1a9085ebd2c52ddceaa8d972035afaea2a1f1d3031357bac2586237438cfc20a51468e620b0ff8775d057446ce2ef0768d947e9f25
-libxdmcp-checksum = cb1d4650f97d66e73acd2465ec7d757b9b797cce2f85e301860a44997a461837eea845ec9bd5b639ec5ca34c804f8bdd870697a5ce3f4e270b687c9ef74f25ec
-libxext-checksum = 58f4e87f200bfde2b9a2cd85c1c39d5462b702e12274ffa5fae5bd3a08b3dfab1290b399c31224c86627d927106e4dbfcdec6152c11b169834442008228796d4
-libxt-checksum = 9ec0f95ae073360ea7a80ffca2dcd998c991363b79696550c4f88edf2c9cbf740caca23929660b77fffca4ca292465a101398e9e891cd00db85f8eceaa78cde0
-util-macros-checksum = b29c388c60b8318a478656f0552210b2194ee302c082f694e5426ac5c3f4b97fc3e377cd6a7b2b97c3da3442cfb4a5e42dbae18e151ae39f5f84554016a01155
-xcb-proto-checksum = b1e2c12c9d66e729815e782af47cfd50ede4c771fe0d0607a423a3bcddfb5f2fdf5c8b58b17cfccf508104cf5ad6cc05be8bad5f96807538322050ecd65fa320
-xorgproto-checksum = 32852ca4d682207dd1399274714f26da6a995c3f4a20c3ef197e8dfd637f6782d4ce02cb8721ca0179e4618a585beacc53e74537869434dc3096d4ad47e10c26
-xtrans-checksum = 1c2fdd7cb906f012f7db5d42466734f89608bf3376b6bf4b115c2efbf71c4247587cc218ccfcfaa6d50f0cf336865d10fc604515b25bc6e95917db8acb7e3000
+libxau-checksum = db9c8ce453a650a493f83e30d4fa3b50aabaf01e98b5e24f666c32238f46a8c2c120cd18ac8fda447c3c7f9bf300f9e3a08a1cd2bd1c4ef4ace72a54cfb8243c
+libxcb-checksum = e360337777e578c76251b793dc4e7e9203271f4dd0e1032abbc092f96fa228717fbb702965dff061264cca52f2540c983f4085fa486ced0145ebcc4b9e5b766a
+libxdmcp-checksum = 3c25a8d37f2ea553ebadfd9d886592f9c181e7da0a73b5e7bc853f15f0cddbae39483e55dc417c47ed55b45b8401e633efcb02d692af715b1ec1549b75a67378
+libxext-checksum = 99b2dc7b1e65e78b3335138176a1031a8259820b60abe0ebc87b0c8cc1d3bc9f65aca8b43942811ff78b4e85640e0d4cd63b092423b1351daf32bc4109debf88
+libxt-checksum = 776457c702a8685cdda0c2c0b1d1c441f8e20513b89f83b031c3037ae132b56dec53027465c15b2c2d7d5dd0e6933840b5325de8a7242ef0daa76ae5f28016a5
+util-macros-checksum = a9facbdcf973bfb202832b57207731152e7d58ca4ba034b4de31b931256af55daa651d0463309bed5ad84ed892b19b319c919aab77c849e08deac083d1445529
+xcb-proto-checksum = ea92650cacf0a864381fa29ec5e0c9562435cdbd8604ada5639a79e6aa359b3ef0d7ad0a10c5b1599fa1ddd49d86fade4048526445a9525c2978fa984a34f7fb
+xorgproto-checksum = 1b52be01bea4c22c0bd92ea073d1a11e08e9233e93e28d578a7cb247385f3a270b4fb4ce463cb853f3e1a9c6acb45da456e5f6caf4cfa7676a9e316e98bd22cc
+xtrans-checksum = 84f1142994f93882c9c68a4a85a218290c1c979162dbd4c5ee6b6becf0f96b69685d292cae1793ce65db8d7f1fe3f8955499f4b2ced771081894921512e2e16a
 
 # Python packages
 # ---------------
diff --git a/reproduce/software/config/urls.conf b/reproduce/software/config/urls.conf
index a5998d5..b742fb1 100644
--- a/reproduce/software/config/urls.conf
+++ b/reproduce/software/config/urls.conf
@@ -20,7 +20,7 @@
 #bash-url = http://akhlaghi.org/src
 #binutils-url = http://ftp.gnu.org/gnu/binutils
 #bzip2-url = https://sourceware.org/pub/bzip2
-#cert-url = http://akhlaghi.org/maneage-software
+#certpem-url = http://akhlaghi.org/maneage-software
 #coreutils-url = http://ftp.gnu.org/gnu/coreutils
 #curl-url = https://curl.haxx.se/download
 #dash-url = http://gondor.apana.org.au/~herbert/dash/files
@@ -62,7 +62,7 @@
 #which-url = http://ftp.gnu.org/gnu/which
 #xz-url = http://tukaani.org/xz
 #zip-url = $(shell echo ftp://ftp.info-zip.org/pub/infozip/src/zip$$(echo $(zip-version) | sed -e's/\.//').tgz)
-#zlib-url = http://www.zlib.net
+#zlib-url = https://zlib.net/current/zlib.tar.gz # The version is in the tar
 
 
 
@@ -111,13 +111,13 @@
 #imfit-url = http://www.mpe.mpg.de/~erwin/resources/imfit
 #lapack-url = http://www.netlib.org/lapack
 #libbsd-url = http://libbsd.freedesktop.org/releases
-#libffi-url = https://sourceware.org/libffi/
+#libffi-url = https://github.com/libffi/libffi
 #libgit2-url = http://akhlaghi.org/src
 #libidn-url = https://ftp.gnu.org/gnu/libidn
 #libjpeg-url = http://ijg.org/files
 #libmd-url = https://archive.hadrons.org/software/libmd/
 #libnsl-url = http://akhlaghi.org/maneage-software
-#libpaper-url=http://ftp.debian.org/debian/pool/main/libp/libpaper/
+#libpaper-url = http://ftp.debian.org/debian/pool/main/libp/libpaper/
 #libpng-url = https://download.sourceforge.net/libpng
 #libtiff-url = https://download.osgeo.org/libtiff
 #libtirpc-url = https://downloads.sourceforge.net/libtirpc
@@ -139,7 +139,7 @@
 #swarp-url = https://www.astromatic.net/download/swarp
 #swig-url = https://sourceforge.net/projects/swig/files/swig/swig-$(swig-version)
 #tides-url = http://akhlaghi.org/maneage-software
-#util-linux-url = https://mirrors.edge.kernel.org/pub/linux/utils/util-linux/v2.35/
+#util-linux-url = https://mirrors.edge.kernel.org/pub/linux/utils/util-linux/v2.40
 #valgrind-url = https://sourceware.org/pub/valgrind
 #vim-url = ftp://ftp.vim.org/pub/vim/unix
 #wcslib-url = ftp://ftp.atnf.csiro.au/pub/software/wcslib
@@ -158,6 +158,7 @@
 #libxdmcp-url = https://www.x.org/pub/individual/lib
 #libxext-url = https://www.x.org/pub/individual/lib
 #libxext-url = https://www.x.org/archive/individual/lib/
+#libxt-url = https://www.x.org/archive/individual/lib
 #util-macros-url = https://www.x.org/pub/individual/util
 #xcb-proto-url = https://xorg.freedesktop.org/archive/individual/proto
 #xorgproto-url = https://xorg.freedesktop.org/archive/individual/proto
diff --git a/reproduce/software/config/versions.conf b/reproduce/software/config/versions.conf
index e8b8542..07bdb9e 100644
--- a/reproduce/software/config/versions.conf
+++ b/reproduce/software/config/versions.conf
@@ -17,51 +17,51 @@
 # --------------------------------------------------------------
 #
 # CLASS:BASIC (important identifier for 'awk'; don't modify this line)
-bash-version = 5.2-rc2
-binutils-version = 2.39
+bash-version = 5.2.37
+binutils-version = 2.43.1
 bison-version = 3.8.2
-coreutils-version = 9.1
-curl-version = 7.84.0
-dash-version = 0.5.11-057cd65
-diffutils-version = 3.8
-file-version = 5.42
-findutils-version = 4.9.0
+coreutils-version = 9.6
+curl-version = 8.11.1
+dash-version = 0.5.12
+diffutils-version = 3.10
+file-version = 5.46
+findutils-version = 4.10.0
 flock-version = 0.4.0
-gawk-version = 5.1.1
-gcc-version = 12.1.0
-gettext-version = 0.21
-git-version = 2.37.1
-gmp-version = 6.2.1
-grep-version = 3.7
-gzip-version = 1.12
-help2man-version = 1.49.2
-isl-version = 0.24
-less-version = 590
-libiconv-version = 1.17
-libtool-version = 2.4.7
-libunistring-version = 1.0
-libxml2-version = 2.9.12
-lzip-version = 1.23
+gawk-version = 5.3.1
+gcc-version = 14.2.0
+gettext-version = 0.23.1
+git-version = 2.48.1
+gmp-version = 6.3.0
+grep-version = 3.11
+gzip-version = 1.13
+help2man-version = 1.49.3
+isl-version = 0.27
+less-version = 668
+libiconv-version = 1.18
+libtool-version = 2.5.4
+libunistring-version = 1.3
+libxml2-version = 2.13.5
+lzip-version = 1.25
 m4-version = 1.4.19
-make-version = 4.3
-mpc-version = 1.2.1
-mpfr-version = 4.1.0
-nano-version = 6.4
-ncurses-version = 6.3
-openssl-version = 3.0.5
-perl-version = 5.36.0
+make-version = 4.4.1
+mpc-version = 1.3.1
+mpfr-version = 4.2.1
+nano-version = 8.3
+ncurses-version = 6.5
+openssl-version = 3.4.0
+perl-version = 5.40.1
 pkgconfig-version = 0.29.2
-podlators-version = 4.14
-readline-version = 8.2-rc2
-sed-version = 4.8
-tar-version = 1.34
-texinfo-version = 6.8
+podlators-version = 6.0.2
+readline-version = 8.2.13
+sed-version = 4.9
+tar-version = 1.35
+texinfo-version = 7.2
 unzip-version = 6.0
-wget-version = 1.21.2
-which-version = 2.21
-xz-version = 5.2.5
+wget-version = 1.25.0
+which-version = 2.23
+xz-version = 5.6.3
 zip-version = 3.0
-zlib-version = 1.2.11
+zlib-version = 1.3.1
 
 # Version-dependent build
 # -----------------------
@@ -78,7 +78,7 @@ bzip2-version = 1.0.8
 # '/etc/ssl/cert.pem' (which may be a symbolic link to its actual
 # location). The current version was taken from an up-to-date ArchLinux at
 # the date that is also equal to the version.
-certpem-version = 2021-10-15
+certpem-version = 2025-02-10
 
 # PatchELF
 # --------
@@ -107,38 +107,38 @@ apr-util-version = 1.6.1
 apr-version = 1.7.0
 astrometrynet-version = 0.91
 atlas-version = 3.10.3
-autoconf-version = 2.71
-automake-version = 1.16.5
+autoconf-version = 2.72
+automake-version = 1.17
 boost-version = 1.77.0
 cairo-version = 1.16.0
 cdsclient-version = 3.84
-cfitsio-version = 4.1.0
-cmake-version = 3.24.0
+cfitsio-version = 4.5.0
+cmake-version = 3.31.5
 eigen-version = 3.4.0
 emacs-version = 28.1
-expat-version = 2.4.1
+expat-version = 2.6.4
 fftw-version = 3.3.10
 flex-version = 2.6.4-410-74a89fd
-freetype-version = 2.11.0
+freetype-version = 2.13.3
 gdb-version = 11.1
 ghostscript-fonts-gnu-version = 6.0
 ghostscript-fonts-std-version = 8.11
-ghostscript-version = 9.56.1
-gnuastro-version = 0.18
+ghostscript-version = 10.04.0
+gnuastro-version = 0.23
 gperf-version = 3.1
-gsl-version = 2.7
+gsl-version = 2.8
 icu-version = 70.1
 imagemagick-version = 7.1.0-13
 imfit-version = 1.6.1
 libbsd-version = 0.11.3
-libffi-version = 3.4.2
-libidn-version = 1.38
-libjpeg-version = 9e
+libffi-version = 3.4.7
+libidn-version = 1.42
+libjpeg-version = 9f
 libmd-version = 1.0.4
 libnsl-version = 1.2.0-4a062cf
-libpaper-version = 1.1.28
-libpng-version = 1.6.37
-libtiff-version = 4.4.0
+libpaper-version = 1.1.29
+libpng-version = 1.6.46
+libtiff-version = 4.7.0
 libtirpc-version = 1.2.6
 metastore-version = 1.1.2-23-fa9170b
 missfits-version = 2.8.0
@@ -149,7 +149,7 @@ patch-version = 2.7.6
 pcre-version = 8.44
 pixman-version = 0.40.0
 plplot-version = 5.15.0
-python-version = 3.10.6
+python-version = 3.13.2
 r-cran-version = 4.1.2
 rpcsvc-proto-version = 1.4
 scamp-version = 2.10.0
@@ -158,33 +158,33 @@ sextractor-version = 2.25.0
 swarp-version = 2.41.5
 swig-version = 4.0.2
 tides-version = 2.0
-util-linux-version = 2.38.1
+util-linux-version = 2.40.4
 valgrind-version = 3.18.1
 vim-version = 9.0
-wcslib-version = 7.11
+wcslib-version = 8.4
 xlsxio-version = 0.2.21
 yaml-version = 0.2.5
 
 # Xorg packages
-fontconfig-version = 2.14.0
-libice-version = 1.0.10
-libpthread-stubs-version = 0.4
-libsm-version = 1.2.3
+fontconfig-version = 2.16.0
+libice-version = 1.1.2
+libpthread-stubs-version = 0.5
+libsm-version = 1.2.5
 libx11-version = 1.8
-libxau-version = 1.0.9
-libxcb-version = 1.15
-libxdmcp-version = 1.1.3
-libxext-version = 1.3.4
-libxt-version = 1.2.1
-util-macros-version = 1.19.3
-xcb-proto-version = 1.15
-xorgproto-version = 2022.1
-xtrans-version = 1.4.0
+libxau-version = 1.0.12
+libxcb-version = 1.17.0
+libxdmcp-version = 1.1.5
+libxext-version = 1.3.6
+libxt-version = 1.3.1
+util-macros-version = 1.20.2
+xcb-proto-version = 1.17.0
+xorgproto-version = 2024.1
+xtrans-version = 1.5.2
 
 # Version-dependent build
 # -----------------------
 lapack-version = 3.8.0
-libgit2-version = 1.3.0
+libgit2-version = 1.9.0
 
 # Netpbm's questions in the configure steps maybe change with different or
 # new versions.
diff --git a/reproduce/software/make/basic.mk b/reproduce/software/make/basic.mk
index 68c40b3..628a0e2 100644
--- a/reproduce/software/make/basic.mk
+++ b/reproduce/software/make/basic.mk
@@ -774,7 +774,7 @@ $(ibidir)/openssl-$(openssl-version): $(ibidir)/podlators-$(podlators-version) \
 #	First download the certificates and copy them into the
 #	installation directory.
 	tarball=cert.pem-$(certpem-version)
-	$(call import-source, $(cert-url), $(cert-checksum))
+	$(call import-source, $(certpem-url), $(certpem-checksum))
 	cp $(tdir)/cert.pem-$(certpem-version) $(idir)/etc/ssl/cert.pem
 
 #	Now download the OpenSSL tarball.
diff --git a/reproduce/software/make/high-level.mk b/reproduce/software/make/high-level.mk
index 2274c45..fdab193 100644
--- a/reproduce/software/make/high-level.mk
+++ b/reproduce/software/make/high-level.mk
@@ -118,11 +118,16 @@ else
 
 endif
 
+# Disable the TeXLive target if `--offline`
+ifneq ($(strip $(offline)),1)
+  target-texlive := $(itidir)/texlive
+endif
+
 # Ultimate Makefile target.
 all: $(foreach p, $(targets-proglib), $(ibidir)/$(p)) \
      $(foreach p, $(targets-python), $(ipydir)/$(p)) \
      $(foreach p, $(targets-r-cran),  $(ircrandir)/$(p)) \
-     $(itidir)/texlive
+     $(target-texlive)
 
 # Define the shell environment
 # ----------------------------
@@ -433,11 +438,14 @@ $(ibidir)/cfitsio-$(cfitsio-version):
 #	Continue the standard build on the customized tarball. Note that
 #	with the installation of CFITSIO, 'fpack' and 'funpack' are not
 #	installed by default. Because of that, they are added explicity.
+#
+#	Note that older versions of CFITSIO (before 4.4.0) require a
+#	specific 'shared' target for the building of the shared libraries.
 	export gbuild_tar=$(ddir)/$$customtar
 	$(call gbuild, cfitsio-$(cfitsio-version), , \
 	               --enable-sse2 --enable-reentrant \
 	               --with-bzip2=$(idir), , \
-	               make shared fpack funpack)
+	               make fpack funpack)
 	rm $$customtar
 	echo "CFITSIO $(cfitsio-version)" > $@
 
@@ -921,8 +929,8 @@ $(ibidir)/libgit2-$(libgit2-version): $(ibidir)/cmake-$(cmake-version)
 	              -DUSE_SSH=OFF -DBUILD_CLAR=OFF \
 	              -DTHREADSAFE=ON -DUSE_ICONV=OFF )
 	if [ x$(on_mac_os) = xyes ]; then
-	  install_name_tool -id $(ildir)/libgit2.1.3.dylib \
-	                        $(ildir)/libgit2.1.3.dylib
+	  install_name_tool -id $(ildir)/libgit2.1.9.dylib \
+	                        $(ildir)/libgit2.1.9.dylib
 	fi
 	echo "Libgit2 $(libgit2-version)" > $@
 
@@ -1156,7 +1164,9 @@ $(ibidir)/ghostscript-$(ghostscript-version): \
 	            --disable-cups \
 	            --enable-dynamic \
 	            --disable-compile-inits \
-	            CFLAGS="-DPNG_ARM_NEON_OPT=0"
+		    --disable-hidden-visibility \
+		    CFLAGS="-DPNG_ARM_NEON_OPT=0" \
+		    LDFLAGS=-Wl,--copy-dt-needed-entries
 
 #	Build and install the program and the shared libraries.
 	make    V=1 -j$(numthreads)
@@ -1642,7 +1652,10 @@ $(ibidir)/swig-$(swig-version):
 # '$(ibdir)'. If any program does need 'util-linux' libraries, they can
 # simply add the proper directories to the environment variables, see
 # 'fontconfig' for example.
-$(ibidir)/util-linux-$(util-linux-version): | $(idircustom)
+$(ibidir)/util-linux-$(util-linux-version): \
+                     $(ibidir)/autoconf-$(autoconf-version) \
+                     $(ibidir)/automake-$(automake-version) \
+                     | $(idircustom)
 
 #	Import the source.
 	tarball=util-linux-$(util-linux-version).tar.lz
@@ -1663,18 +1676,20 @@ $(ibidir)/util-linux-$(util-linux-version): | $(idircustom)
 	  git apply util-linux-$(util-linux-version)-macos.patch
 	fi
 
-#       The 'mkswap' feature needs low-level file system and kernel headers
-#       that are not always available (in particular on older Linux
-#       kernels). Also, creating SWAP space will need root permissions, so
-#       its not something a Maneager may need! Unfortunately there is no
-#       configuration option to disable this so we'll have to disable it
-#       manually by commenting the relevant files in the
-#       'configure.ac'. Having a more recent 'configure.ac' will trigger
-#       the './configure' script to be re-created after the first run, but
-#       it is pretty fast and not a problem.
+#	The 'mkswap' feature needs low-level file system and kernel headers
+#	that are not always available (in particular on older Linux
+#	kernels). Also, creating SWAP space will need root permissions, so
+#	its not something a Maneager may need! Unfortunately there is no
+#	configuration option to disable this so we'll have to disable it
+#	manually by commenting the relevant files in the
+#	'configure.ac'.
 	sed -e's|UL_BUILD_INIT(\[mkswap\], \[yes\])|UL_BUILD_INIT(\[mkswap\], \[no\])|' \
 	    -i configure.ac
 
+#	Having updated 'configure.ac', we need to re-generate the
+#	'./configure' script with 'autoreconf' (which is part of Autoconf
+#	and needs Automake; hence why they are dependencies.
+	autoreconf -f
 
 #	Configure Util-linux
 	export CONFIG_SHELL=$(ibdir)/bash
@@ -1682,6 +1697,7 @@ $(ibidir)/util-linux-$(util-linux-version): | $(idircustom)
 	            --disable-dependency-tracking \
 	            --enable-libmount-support-mtab \
 	            --disable-silent-rules \
+	            --disable-liblastlog2 \
 	            --disable-mountpoint \
 	            --disable-libmount \
 	            --disable-unshare \
diff --git a/reproduce/software/make/python.mk b/reproduce/software/make/python.mk
index deeccf2..43e2e77 100644
--- a/reproduce/software/make/python.mk
+++ b/reproduce/software/make/python.mk
@@ -106,13 +106,17 @@ $(ibidir)/python-$(python-version): $(ibidir)/libffi-$(libffi-version)
 #	libraries to link to and those are blocked at this level). So we
 #	need to add an extra line on top of the 'os.system' funciton and
 #	put '/usr/lib' in 'LD_LIBRARY_PATH' within Python's environment for
-#	system calls (with 'os.putenv').
-	awk '{if(/os.system\(/) \
-	       { print "    os.putenv(\"LD_LIBRARY_PATH\", \"$$LD_LIBRARY_PATH:$(sys_library_sh_path)\");"; \
-	         print $$0;} \
-	      else print $$0}' \
-	    setup.py > setup-tmp.py
-	mv setup-tmp.py setup.py
+#	system calls (with 'os.putenv'). As of Python 3.13.2 the tarball no
+#	longer has an 'setup.py'. But when it did, the change below was
+#	necessary.
+	if [ -f setup.py ]; then
+	   awk '{if(/os.system\(/) \
+	          { print "    os.putenv(\"LD_LIBRARY_PATH\", \"$$LD_LIBRARY_PATH:$(sys_library_sh_path)\");"; \
+	            print $$0;} \
+	         else print $$0}' \
+	       setup.py > setup-tmp.py
+	   mv setup-tmp.py setup.py
+	fi
 
 #	Do the basic installation and delete the temporary directory.
 	./configure SHELL=$(ibdir)/bash \
diff --git a/reproduce/software/make/xorg.mk b/reproduce/software/make/xorg.mk
index 3f99fab..864c32a 100644
--- a/reproduce/software/make/xorg.mk
+++ b/reproduce/software/make/xorg.mk
@@ -79,7 +79,7 @@ $(ibidir)/libxau-$(libxau-version): $(ibidir)/xorgproto-$(xorgproto-version)
 
 # Library implementing the X Display Manager Control Protocol.
 $(ibidir)/libxdmcp-$(libxdmcp-version): $(ibidir)/libxau-$(libxau-version)
-	tarball=libXdmcp-$(libxdmcp-version).tar.bz2
+	tarball=libXdmcp-$(libxdmcp-version).tar.lz
 	$(call import-source, $(libxdmcp-url), $(libxdmcp-checksum))
 	$(call gbuild, libXdmcp-$(libxdmcp-version),,$(XORG_CONFIG), V=1)
 	echo "libXdmcp (Xorg) $(libxdmcp-version)" > $@
diff --git a/reproduce/software/shell/configure.sh b/reproduce/software/shell/configure.sh
index 857f3b5..f226ced 100755
--- a/reproduce/software/shell/configure.sh
+++ b/reproduce/software/shell/configure.sh
@@ -1612,11 +1612,11 @@ fi
 # which will download the DOI-resolved webpage, and extract the Zenodo-URL
 # of the most recent version from there (using the 'coreutils' tarball as
 # an example, the directory part of the URL for all the other software are
-# the same). This is not done if the option '--debug' is used.
+# the same). This is not done if the options '--debug' or `--offline` are used.
 zenodourl=""
 user_backup_urls=""
 zenodocheck=.build/software/zenodo-check.html
-if [ x$debug = x ]; then
+if [ x$debug = x ] && [ x$offline = x ]; then
   if $downloader $zenodocheck https://doi.org/10.5281/zenodo.3883409; then
       zenodourl=$(sed -n -e'/coreutils/p' $zenodocheck \
                       | sed -n -e'/http/p' \
@@ -1723,6 +1723,7 @@ fi
                on_mac_os=$on_mac_os \
                sys_cpath=$sys_cpath \
                host_cc=$host_cc \
+               offline=$offline \
                -j$numthreads
 
 
diff --git a/reproduce/software/shell/tarball-prepare.sh b/reproduce/software/shell/tarball-prepare.sh
index e12ff98..09e1c89 100755
--- a/reproduce/software/shell/tarball-prepare.sh
+++ b/reproduce/software/shell/tarball-prepare.sh
@@ -159,12 +159,19 @@ for f in $allfiles; do
     name=$(echo $(basename $f) \
 	       | sed -e 's/.tar.*//' -e's/_/-/')
 
+    # Lzip will not be available to unpack Lzip itself, so just use Tar.
+    if [[ $name =~ ^lzip ]]; then
+      outname=$name.tar
+    else
+      outname=$name.tar.lz
+    fi
+
     # Skip previously packed files
-    if [ -f $odir/$name.tar.lz ]; then
+    if [ -f $odir/$outname ]; then
 
         # Print the info message if not in quiet mode
         if [ -z $quiet ]; then
-            echo "$scriptname: $odir/$name.tar.lz: already present in output directory"
+            echo "$scriptname: $odir/$outname: already present in output directory"
         fi
 
         # skip this file
@@ -206,19 +213,26 @@ for f in $allfiles; do
     # Put the current date on all the files because some packagers will not
     # add dates to their release tarballs, resulting in dates of the
     # Unix-time zero'th second (1970-01-01 at 00:00:00)!
-    touch $(find "$name"/ -type f)
+    # -print0 is needed for those tarballs that has paths with spaces. For
+    # the same reason it's needed also `xargs -0`. (`xargs` is needed also
+    # for large tarballs such as gcc's)
+    find "$name"/ -type f -print0 | xargs -0 touch
 
     # Pack with recommended options
     tar -c -Hustar --owner=root --group=root \
         -f $name.tar $name/
-    lzip -9 $name.tar
+
+    # Lzip will not be available when unpacking Lzip, so we just use Tar.
+    if [[ ! $name =~ ^lzip ]]; then
+        lzip -9 $name.tar
+    fi
 
     # Move the compressed file from the temporary directory to the target
     # output directory
-    mv $name.tar.lz $odir/
+    mv $outname $odir/
 
     # Print the sha512sum along with the filename for a quick reference
-    echo $(sha512sum $odir/$name.tar.lz)
+    echo $(sha512sum $odir/$outname)
 
     # Clean up the temporary directory
     rm -rf $tmpdir
-- 
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