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✗  pixi run -e dev ../admin/check_versions.py

🔍 Checking dependency versions...

🔍 Discovering environments...
Found environments: default, dev, metabuli, singlem, chopper, fastqc, nanoplot, quast, bbmap, flye, polishing, pilon, minimap2, spades, pysam, mfqe, final-assembly, seqkit, metabat2, checkm, checkm2, coverm, das-tool, rosella, maxbin2, concoct, vamb, taxvamb, taxvamb-gpu, semibin, semibin-gpu, comebin, comebin-gpu, eggnog, gtdbtk, pggb
Checking all environments: default, dev, metabuli, singlem, chopper, fastqc, nanoplot, quast, bbmap, flye, polishing, pilon, minimap2, spades, pysam, mfqe, final-assembly, seqkit, metabat2, checkm, checkm2, coverm, das-tool, rosella, maxbin2, concoct, vamb, taxvamb, taxvamb-gpu, semibin, semibin-gpu, comebin, comebin-gpu, eggnog, gtdbtk, pggb

📦 Checking environment: default
==================================================

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-- Loop counter
DECLARE counter int64 default 1;

-- Create intermediate table with organisms that are metagenomes
CREATE OR REPLACE TABLE test.emp
AS
WITH cte AS
(
SELECT 1 AS xlevel, tax_id, parent_id, sci_name

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samples = [1,2,3,4,5]


rule all:
    input:
        "test.out"


rule a:
    output:

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options(repr.plot.width=15)
analyse <- function(current_samples, p0) {
    # p0 = 0.5
    print("Current samples:")
    print(current_samples)

    proportion = sum(current_samples<(p0*n))
    print(paste("Proportion less than",p0*n,'is',proportion,"out of",length(current_samples)))

    binom_test_result = binom.test(proportion, length(current_samples), p=p0)

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>sequence1
CATCCTTTAACAATAGCCGTAGCCTTCACTTTTTTCTGGCTGCTTGGCCTGTTGTCGGTATTTGGTTTGCTGCTCTGGGTGTGTCTACAATGGCTTTTAATCTTAACGGTTTCAATTTTAACCAGTCCCTACTGGATAGTCAGGGGCGTGTTGTGCGTACTTGGGCTGACATCCTTAACCAAGCTAACCTTGGATTTGAAGTCATGCACGAACGTAATGCGCACAACTTTCCGCTAGACCTCGCTGCAGCAGACGTAACTCCTGTTGCTCTTACTGCACCTGCTGTAGGCTAATCTCCGTCCGTTCATCCCTCACAAGGGACGCATGAAGTTTGATCATGGAACGGGGGTCAAACACTTGGAGATTATCATGGCTTATCAAGTCACCTACAAGTATCGCGGCGTTTCTTACACTAAAACGGTAGTCCGTTAAAGCGGCATTGGGAGGTGCAAACCCTCCCTTACCTATTGGCGTTGGCCCTTACGAGGACACCCTTCGCCGTCTAGACGGTGGGATAGACCACAATAAAAACCCGAAAAAAATTTTCCAAAGCTTTGGAGAGAACCTATTTGTAATTTCTCTCTTTTTTAAAAATGGCACAACAAGCTGGCTCTGGTCTGCTTCAGTCTGCACTGACGCGTCCAGGCTCTCTTAATGGTGCGGCAGATGCCCGCGCCCTGTATCTCAAGCTTTTTAGCGGTGAGATGTTCAAAGGCTTCCAGCACAATGCGATCGCTCGTGACCTTGTGATGAAGCGCACCCTCAAGGGTGGCAAGAGTCTCCAGTTCATCTACACTGGACACACTCAAGCTGAGTTCCATACCCCCGGTCGGGCTATTCTTGGTAATGACCAGGGTGCTCCCCCGGTGGCTGAGAAGACCATCACCTGTGATGACCTTCTGATCAGCTCGGCTTTCCTGTACGAACTCGATGAAGTTCTGTCTCATTACGATCTGCGTAGTGAGATCTCCCGTAAGATCGGCTATGCTCTGGCTCAGAAGTATGACCGTCTG

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>random_sequence_length_50000_1
CCGTCACGATCATAAGCCCAGGTATTTTCTCATAGGATTAAGCCTTAGCTCCGTACAAGCCAAGCGCTAACGAACGTAGCTCGGGAATTAGCCGTACATAATGACTGCCGGCATGACATAAAGTGGCAGATTTGCAAAATTTGCTCGTACCTCCGGATTTGCTCCTGATCTCCGTTACAATGTGGTCTCTATAGACTGGTAAATCCCATTTAGGCCGAATTGTAGCGGACCAATGCCCCTAGATGAACTCAATGACCACCCACGTTGCCGACATAAATAGGCATCCTGGGTCTCTGGAGGAGCATAGCCGGGATTAGCATGTATTGGAACAGATACGACGATTGGAATAAGTCGGCAGGACGTCACGATGCCCACCTTTCGTGGTATTCTTCGATATTAGCTGACTCCTTGGGTTCTGAGGACATCGAATTTTTATGTGTTTAGACTAACCCACTAATTATTGACGAAGGACTCGATTAACTGGCATTTTGCGCACCGTCTCTTATTTGACGGCAAGTAGCAGTCTAGCACACGACCTAGTGAGCAAAAATACTTCCTTGTGAGACGGGCGGTCTAGCGGCGTGGCTAAGGTAAAAGAAACGGCGCAAGCGCTACCCTAGCGCGGCGTAGCCGATCACACACCGGTCCCGCAGGAGCCAGCGCATTGCGGGTTGGTACAACCAAAGAGGAATCGGTGTCGCGGAACGATAACTTTGAATTAGGTCAGGTTCTTTAAAGACTGTTCTCACCTGAAATTCATTTAGACTGTTCCCGGGCGCCATTGAGATCGTAATCCGGCCCACGGTGATACAAGTCCTTTACGATACATATGCGGGTGCAAGCCACCCAACTGCCCATCGCCCTTTCATCTGCCCCAGAAGCGGGGACCCGAAATTGAAGGACACTAATAAATTGACGTAATGTACGGTAATAAAGAATCTGGTAGGGTGCCCCACTCCATGTTGAGAGGATTGCCTCATCGCCCTAAACGT

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@NS500333:300:HNGK5AFXY:1:11101:14311:1054 1:N:0:GGAGCTAC+NTTAGACG
CGGGTNCACTGCATCTTCACAGCGAGTTCAATTTCACTGAGTCTCGGGTGGAGACAGCCTGGCCATCATTACGCCA
+
AAAAA#EEEEEEEEEEEEA6EEEEEEEE<EEEEEE/EEEEEEEEEEEEEEEEEEE/EEEE/EEEEEEEAEEE<AE<
@NS500333:300:HNGK5AFXY:1:11101:22036:1054 1:N:0:GGAGCTAC+NTTAGACG
GTTCCNGGCCGGACCGCTGGCAACAAAGGATAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATTTCACAACA
+
AAAAA#EEEEEEEEEAEEEEEEEEEEEEEEEAEEEEEEEE/EEEEAEEEEAEEEEE/AEEEAEEEEEEEEEE<E/
@NS500333:300:HNGK5AFXY:1:11101:13098:1055 1:N:0:GGAGCTAC+NTTAGACG
TTAGCNAGTAGGTGGGGTAACGGCTCACCTAGGCGACGATCCCTAGCTGGTCTGAGAGGATGACCAGCCACACTGG

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~/git/mrustc/output$ tail *_dbg.txt
==> liballoc.hir_dbg.txt <==
(0.00 s) MIR Validate PO: DONE
MIR Validate Full: V V V
(0.00 s) MIR Validate Full: DONE
Trans Enumerate: V V V
(0.00 s) Trans Enumerate: DONE
Trans Codegen: V V V
Running comamnd - "gcc" "-ffunction-sections" "-pthread" "-O2" "-g" "-o" "output/liballoc.hir.o" "output/liballoc.hir.o.c" "-c" 
(0.01 s) Trans Codegen: DONE

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phase `unpack' succeeded after 0.5 seconds
starting phase `patch-usr-bin-file'
phase `patch-usr-bin-file' succeeded after 0.0 seconds
starting phase `patch-source-shebangs'
phase `patch-source-shebangs' succeeded after 0.2 seconds
starting phase `patch-generated-file-shebangs'
phase `patch-generated-file-shebangs' succeeded after 0.0 seconds
starting phase `build'
cd bamtools && rm -rf bin build lib include src/toolkit/bamtools_version.h
mkdir bamtools/build

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starting phase `check'
t/00_requires_external.t
1..8
ok 1 - blastp in PATH
ok 2 - makeblastdb in PATH
ok 3 - mcl in PATH
ok 4 - mcxdeblast in PATH
ok 5 - bedtools in PATH
ok 6 - prank in PATH
ok 7 - parallel in PATH