#453 subset-bam compile debug

453_trusTEr/old_subset-bam.eb

@@ -0,0 +1,311 @@
+# Author: J. Sassmannshausen (Imperial College London/UK)
+
+easyblock = 'Cargo'
+
+name = 'subset-bam'
+version = '1.1.0'
+
+homepage = 'https://github.com/10XGenomics/subset-bam'
+description = """subset-bam is a tool to subset a 10x Genomics BAM file based on a tag, 
+most commonly the cell barcode tag."""
+
+toolchain = {'name': 'GCCcore', 'version': '12.2.0'}
+
+crates = [
+    ('addr2line', '0.12.1'),
+    ('adler32', '1.1.0'),
+    ('aho-corasick', '0.6.10'),
+    ('aho-corasick', '0.7.10'),
+    ('ansi_term', '0.11.0'),
+    ('arrayref', '0.3.6'),
+    ('arrayvec', '0.5.1'),
+    ('atty', '0.2.14'),
+    ('autocfg', '1.0.0'),
+    ('backtrace', '0.3.49'),
+    ('base64', '0.11.0'),
+    ('bindgen', '0.36.1'),
+    ('bitflags', '0.9.1'),
+    ('bitflags', '1.2.1'),
+    ('blake2b_simd', '0.5.10'),
+    ('bstr', '0.2.13'),
+    ('byteorder', '1.3.4'),
+    ('cc', '1.0.54'),
+    ('cexpr', '0.2.3'),
+    ('cfg-if', '0.1.10'),
+    ('chrono', '0.4.11'),
+    ('clang-sys', '0.22.0'),
+    ('clap', '2.33.1'),
+    ('constant_time_eq', '0.1.5'),
+    ('crossbeam-deque', '0.7.3'),
+    ('crossbeam-epoch', '0.8.2'),
+    ('crossbeam-queue', '0.2.3'),
+    ('crossbeam-utils', '0.7.2'),
+    ('csv', '1.1.3'),
+    ('csv-core', '0.1.10'),
+    ('custom_derive', '0.1.7'),
+    ('data-encoding', '2.2.1'),
+    ('dirs', '1.0.5'),
+    ('either', '1.5.3'),
+    ('env_logger', '0.5.13'),
+    ('faccess', '0.2.3'),
+    ('failure', '0.1.8'),
+    ('failure_derive', '0.1.8'),
+    ('fs-utils', '1.1.4'),
+    ('getrandom', '0.1.14'),
+    ('gimli', '0.21.0'),
+    ('glob', '0.2.11'),
+    ('hermit-abi', '0.1.14'),
+    ('human-panic', '1.0.3'),
+    ('humantime', '1.3.0'),
+    ('idna', '0.1.5'),
+    ('ieee754', '0.2.6'),
+    ('itertools', '0.6.5'),
+    ('itoa', '0.4.6'),
+    ('lazy_static', '0.2.11'),
+    ('lazy_static', '1.4.0'),
+    ('libc', '0.2.71'),
+    ('libloading', '0.5.2'),
+    ('linear-map', '1.2.0'),
+    ('log', '0.4.8'),
+    ('matches', '0.1.8'),
+    ('maybe-uninit', '2.0.0'),
+    ('memchr', '1.0.2'),
+    ('memchr', '2.3.3'),
+    ('memoffset', '0.5.4'),
+    ('miniz_oxide', '0.3.7'),
+    ('newtype_derive', '0.1.6'),
+    ('nom', '3.2.1'),
+    ('num-integer', '0.1.43'),
+    ('num-traits', '0.2.12'),
+    ('num_cpus', '1.13.0'),
+    ('object', '0.20.0'),
+    ('os_type', '2.2.0'),
+    ('peeking_take_while', '0.1.2'),
+    ('percent-encoding', '1.0.1'),
+    ('ppv-lite86', '0.2.8'),
+    ('proc-macro2', '0.3.5'),
+    ('proc-macro2', '1.0.18'),
+    ('quick-error', '1.2.3'),
+    ('quote', '0.5.2'),
+    ('quote', '1.0.7'),
+    ('rand', '0.7.3'),
+    ('rand_chacha', '0.2.2'),
+    ('rand_core', '0.5.1'),
+    ('rand_hc', '0.2.0'),
+    ('rayon', '1.3.1'),
+    ('rayon-core', '1.7.1'),
+    ('redox_syscall', '0.1.56'),
+    ('redox_users', '0.3.4'),
+    ('regex', '0.2.11'),
+    ('regex', '1.3.9'),
+    ('regex-automata', '0.1.9'),
+    ('regex-syntax', '0.5.6'),
+    ('regex-syntax', '0.6.18'),
+    ('remove_dir_all', '0.5.3'),
+    ('ring', '0.14.6'),
+    ('rust-argon2', '0.7.0'),
+    ('rust-htslib', '0.20.0'),
+    ('rustc-demangle', '0.1.16'),
+    ('rustc_version', '0.1.7'),
+    ('ryu', '1.0.5'),
+    ('scopeguard', '1.1.0'),
+    ('semver', '0.1.20'),
+    ('serde', '1.0.113'),
+    ('serde_derive', '1.0.113'),
+    ('simplelog', '0.5.3'),
+    ('spin', '0.5.2'),
+    ('strsim', '0.8.0'),
+    ('syn', '1.0.31'),
+    ('synstructure', '0.12.4'),
+    ('tempfile', '3.1.0'),
+    ('term', '0.5.2'),
+    ('termcolor', '1.1.0'),
+    ('terminal_size', '0.1.12'),
+    ('textwrap', '0.11.0'),
+    ('thread_local', '0.3.6'),
+    ('thread_local', '1.0.1'),
+    ('time', '0.1.43'),
+    ('tinyvec', '0.3.3'),
+    ('toml', '0.5.6'),
+    ('ucd-util', '0.1.8'),
+    ('unicode-bidi', '0.3.4'),
+    ('unicode-normalization', '0.1.13'),
+    ('unicode-width', '0.1.7'),
+    ('unicode-xid', '0.1.0'),
+    ('unicode-xid', '0.2.0'),
+    ('untrusted', '0.6.2'),
+    ('url', '1.7.2'),
+    ('utf8-ranges', '1.0.4'),
+    ('uuid', '0.8.1'),
+    ('vec_map', '0.8.2'),
+    ('wasi', '0.9.0+wasi-snapshot-preview1'),
+    ('which', '1.0.5'),
+    ('winapi', '0.3.8'),
+    ('winapi-i686-pc-windows-gnu', '0.4.0'),
+    ('winapi-util', '0.1.5'),
+    ('winapi-x86_64-pc-windows-gnu', '0.4.0'),
+]
+
+source_urls = ['https://github.com/10XGenomics/subset-bam/archive/']
+sources = ['v%(version)s.tar.gz']
+checksums = [
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+    {'ansi_term-0.11.0.tar.gz': 'ee49baf6cb617b853aa8d93bf420db2383fab46d314482ca2803b40d5fde979b'},
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+    {'bitflags-1.2.1.tar.gz': 'cf1de2fe8c75bc145a2f577add951f8134889b4795d47466a54a5c846d691693'},
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+    {'scopeguard-1.1.0.tar.gz': 'd29ab0c6d3fc0ee92fe66e2d99f700eab17a8d57d1c1d3b748380fb20baa78cd'},
+    {'semver-0.1.20.tar.gz': 'd4f410fedcf71af0345d7607d246e7ad15faaadd49d240ee3b24e5dc21a820ac'},
+    {'serde-1.0.113.tar.gz': '6135c78461981c79497158ef777264c51d9d0f4f3fc3a4d22b915900e42dac6a'},
+    {'serde_derive-1.0.113.tar.gz': '93c5eaa17d0954cb481cdcfffe9d84fcfa7a1a9f2349271e678677be4c26ae31'},
+    {'simplelog-0.5.3.tar.gz': '2e95345f185d5adeb8ec93459d2dc99654e294cc6ccf5b75414d8ea262de9a13'},
+    {'spin-0.5.2.tar.gz': '6e63cff320ae2c57904679ba7cb63280a3dc4613885beafb148ee7bf9aa9042d'},
+    {'strsim-0.8.0.tar.gz': '8ea5119cdb4c55b55d432abb513a0429384878c15dde60cc77b1c99de1a95a6a'},
+    {'syn-1.0.31.tar.gz': 'b5304cfdf27365b7585c25d4af91b35016ed21ef88f17ced89c7093b43dba8b6'},
+    {'synstructure-0.12.4.tar.gz': 'b834f2d66f734cb897113e34aaff2f1ab4719ca946f9a7358dba8f8064148701'},
+    {'tempfile-3.1.0.tar.gz': '7a6e24d9338a0a5be79593e2fa15a648add6138caa803e2d5bc782c371732ca9'},
+    {'term-0.5.2.tar.gz': 'edd106a334b7657c10b7c540a0106114feadeb4dc314513e97df481d5d966f42'},
+    {'termcolor-1.1.0.tar.gz': 'bb6bfa289a4d7c5766392812c0a1f4c1ba45afa1ad47803c11e1f407d846d75f'},
+    {'terminal_size-0.1.12.tar.gz': '8038f95fc7a6f351163f4b964af631bd26c9e828f7db085f2a84aca56f70d13b'},
+    {'textwrap-0.11.0.tar.gz': 'd326610f408c7a4eb6f51c37c330e496b08506c9457c9d34287ecc38809fb060'},
+    {'thread_local-0.3.6.tar.gz': 'c6b53e329000edc2b34dbe8545fd20e55a333362d0a321909685a19bd28c3f1b'},
+    {'thread_local-1.0.1.tar.gz': 'd40c6d1b69745a6ec6fb1ca717914848da4b44ae29d9b3080cbee91d72a69b14'},
+    {'time-0.1.43.tar.gz': 'ca8a50ef2360fbd1eeb0ecd46795a87a19024eb4b53c5dc916ca1fd95fe62438'},
+    {'tinyvec-0.3.3.tar.gz': '53953d2d3a5ad81d9f844a32f14ebb121f50b650cd59d0ee2a07cf13c617efed'},
+    {'toml-0.5.6.tar.gz': 'ffc92d160b1eef40665be3a05630d003936a3bc7da7421277846c2613e92c71a'},
+    {'ucd-util-0.1.8.tar.gz': 'c85f514e095d348c279b1e5cd76795082cf15bd59b93207832abe0b1d8fed236'},
+    {'unicode-bidi-0.3.4.tar.gz': '49f2bd0c6468a8230e1db229cff8029217cf623c767ea5d60bfbd42729ea54d5'},
+    {'unicode-normalization-0.1.13.tar.gz': '6fb19cf769fa8c6a80a162df694621ebeb4dafb606470b2b2fce0be40a98a977'},
+    {'unicode-width-0.1.7.tar.gz': 'caaa9d531767d1ff2150b9332433f32a24622147e5ebb1f26409d5da67afd479'},
+    {'unicode-xid-0.1.0.tar.gz': 'fc72304796d0818e357ead4e000d19c9c174ab23dc11093ac919054d20a6a7fc'},
+    {'unicode-xid-0.2.0.tar.gz': '826e7639553986605ec5979c7dd957c7895e93eabed50ab2ffa7f6128a75097c'},
+    {'untrusted-0.6.2.tar.gz': '55cd1f4b4e96b46aeb8d4855db4a7a9bd96eeeb5c6a1ab54593328761642ce2f'},
+    {'url-1.7.2.tar.gz': 'dd4e7c0d531266369519a4aa4f399d748bd37043b00bde1e4ff1f60a120b355a'},
+    {'utf8-ranges-1.0.4.tar.gz': 'b4ae116fef2b7fea257ed6440d3cfcff7f190865f170cdad00bb6465bf18ecba'},
+    {'uuid-0.8.1.tar.gz': '9fde2f6a4bea1d6e007c4ad38c6839fa71cbb63b6dbf5b595aa38dc9b1093c11'},
+    {'vec_map-0.8.2.tar.gz': 'f1bddf1187be692e79c5ffeab891132dfb0f236ed36a43c7ed39f1165ee20191'},
+    {'wasi-0.9.0+wasi-snapshot-preview1.tar.gz': 'cccddf32554fecc6acb585f82a32a72e28b48f8c4c1883ddfeeeaa96f7d8e519'},
+    {'which-1.0.5.tar.gz': 'e84a603e7e0b1ce1aa1ee2b109c7be00155ce52df5081590d1ffb93f4f515cb2'},
+    {'winapi-0.3.8.tar.gz': '8093091eeb260906a183e6ae1abdba2ef5ef2257a21801128899c3fc699229c6'},
+    {'winapi-i686-pc-windows-gnu-0.4.0.tar.gz': 'ac3b87c63620426dd9b991e5ce0329eff545bccbbb34f3be09ff6fb6ab51b7b6'},
+    {'winapi-util-0.1.5.tar.gz': '70ec6ce85bb158151cae5e5c87f95a8e97d2c0c4b001223f33a334e3ce5de178'},
+    {'winapi-x86_64-pc-windows-gnu-0.4.0.tar.gz': '712e227841d057c1ee1cd2fb22fa7e5a5461ae8e48fa2ca79ec42cfc1931183f'},
+]
+
+# GCC-11.3.0 + Rust-1.65.0 works
+# GCC-12.2.0 + Rust-1.65.0 NOT work
+builddependencies = [
+    ('binutils', '2.39'),
+    ('Rust', '1.65.0'),
+    ('Clang', '16.0.4'),
+]
+
+dependencies = [
+    ('bzip2', '1.0.8'),
+]
+
+# It looks like we need to specify this as else it will not work. 
+buildopts = '-Z unstable-options '
+testopts = '-Z unstable-options '
+installopts = '-Z unstable-options '
+
+sanity_check_paths = {
+    'files': ['bin/subset-bam'],
+    'dirs': [],
+}
+
+sanity_check_commands = ["subset-bam --help"]
+
+moduleclass = 'bio'