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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 |
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$ ./pre-inst-env guix build newick-utils | |
;;; note: source file /home/ben/git/guix/gnu/packages/bioinformatics.scm | |
;;; newer than compiled /home/ben/git/guix/gnu/packages/bioinformatics.go | |
substitute: /gnu/store/dlr4klmngff66l845n8kwj61f11a6mh2-bash-4.3.33/bin/bash: warning: setlocale: LC_ALL: cannot change locale (en_US.UTF-8) | |
substitute: warning: failed to install locale: Invalid argument | |
substitute: updating list of substitutes from 'http://hydra.gnu.org'... 100.0% | |
The following derivation will be built: | |
/gnu/store/nyp6g625brz4mkl249s4f1c8v4baq1g1-newick-utils-1.6.1.acb33ebdf.drv | |
The following file will be downloaded: | |
/gnu/store/fl27mjm8kxp0rj989cd8mj67qjvl0jr3-lua-5.1.5 |
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