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nx_peptide_denovo_test.nx

buildroot/runtime/nx_peptide_denovo_test.nx

8885 B162 linesdepth 5pulls 5 transitivereach 0 importersview sourcekind gate/prooftopic peptide
docsdependenciesstructsconstsfunctions

about

nx_peptide_denovo_test.nx -- gate for de novo sequencing. The liar-kill is the ROUND TRIP (T1): take a known peptide, generate its real b-ion ladder, de novo sequence it back with NO knowledge of the answer, and recover the original sequence. If any residue-mass gap were wrong, a letter would be wrong. Bradykinin (no Leu/Ile) gives an EXACT recovery; angiotensin documents the honest Leu/Ile ambiguity. expect_exit: 0 license_tier: ORIGINAL

dependencies 3 imports · 0 importers

nx_syscalls.nx nx_peptide.nx nx_peptide_denovo.nx nx_peptide_denovo_test.nx

imports: nx_syscalls.nxnx_peptide.nxnx_peptide_denovo.nx

imported by: nobody (leaf or entry point)

call flow from main pre-order; caps 40 nodes / depth 6 declared; ↻ = already shown

main pep_mass_mono_q4 pep_seq_valid pep_len pep_aa_from_char pep_len ↻ pep_aa_from_char ↻ pep_residue_mono_q4 sys_mmap nxa_die sys_write sys_exit nxa_lock_take nxa_lock_addr sys_write ↻ nxa_lock_give nxa_lock_addr ↻ nxa_report_overrun sys_write ↻ nxa_dump_printable sys_write ↻ nxa_dump_sizes sys_write ↻ build_b_ladder pep_len ↻ pep_b_ion_q4 pep_seq_valid ↻ pep_len ↻ pep_aa_from_char ↻ pep_residue_mono_q4 ↻ denovo_sequence denovo_residue pep_residue_mono_q4 ↻ denovo_char t_puts sys_write ↻ t_putn sys_mmap ↻ sys_write ↻ t_streq

structs

none

consts

none

functions

12func t_puts(s: *u8) -> i64 { var n: i64 = 0; while s[n] != (0 as u8) { n = n + 1 } sys_write(1, s, n); return 0 }
called by 1: main calls 1: sys_write
13func t_putn(v: i64) -> i64 { let bb: *u8 = sys_mmap(28); var m: i64 = v; if m < 0 { m = 0 - m; sys_write(1, "-" as *u8, 1) } let t: *u8 = sys_mmap(28); var k: i64 = 0; if m == 0 { t[0] = 48 as u8; k = 1 } while m > 0 { t[k] = (48 + (m % 10)) as u8; m = m / 10; k = k + 1 } var i: i64 = 0; while i < k { bb[i] = t[k - 1 - i]; i = i + 1 } sys_write(1, bb, k); return 0 }
called by 1: main calls 2: sys_mmapsys_write
15func t_streq(a: *u8, b: *u8) -> i64 { var i: i64 = 0; while 1 == 1 { if a[i] != b[i] { return 0 } if a[i] == (0 as u8) { return 1 } i = i + 1 } return 1 }
called by 1: main
18func build_b_ladder(seq: *u8, out: *i64) -> i64
called by 1: main calls 2: pep_lenpep_b_ion_q4
28func main() -> i64
calls 14: pep_mass_mono_q4sys_mmapbuild_b_ladderdenovo_sequencet_putst_putn+8