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averagehat / grammar.hs
Created October 14, 2019 02:46
data Sentence = Simple IndependentClause | Compound [IndependnentClause] | Complex IndependentClause [DependentClause]
data IndependentClause = IndependentClause Subject Predicate | IndependentClause Predicate Subject
data Predicate = Transitive Verb DirectObject
| Intransitive Verb
| LinkingVerb SubjectiveComplement
-- logic programming
data Subject = NounPhrase
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averagehat / nav.html
Last active February 21, 2018 17:36
<link rel="shortcut icon" type="image/x-icon" href="media/favicon.ico">
<div id="wrapper" class="topnav" style="width:100%; overflow:hidden;">
<div id="container" style="width:100%; margin-right:auto;">
<a href="bounties.html">Bounties</a>
<a href="awards.html">Awards</a>
<a href="index.html">News</a>
<a href="forum.html">Forum</a>
<div class="status">
&nbsp&nbsp&nbsp&nbsp&nbsp&nbsp Status: <label> &nbsp&nbsp&nbsp&nbsp&nbsp&nbsp Rookie </label> </div>
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averagehat / Denv1HumanMetadata.csv
Created June 14, 2017 18:23
We can't make this file beautiful and searchable because it's too large.
species,strain,type,disease,accession,year,month,day,country,host,sequence
dengue,360052,DengueVirus1,,AB608789,1994,,,Taiwan,HomoSapiens,ATGAACAACCAACGGAAAAAGACGGCTCGACCGTCTTTCAATATGCTGAAACGCGCGAGAAACCGCGTGTCAACTGTTTCACAGTTGGCGAAGAGATTCTCAAAAGGATTGCTCTCAGGCCAAGGACCCATGAAATTGGTGATGGCTTTCATAGCATTCCTAAGATTTCTAGCCATACCCCCAACAGCAGGAATTTTGGCTAGATGGGGCTCATTCAAGAAGAATGGAGCAATCAAAGTGCTACGGGGTTTCAAGAAAGAAATCTCAAACATGTTAAATATAATGAATAGAAGGAAAAGATCTGTGACCATGCTCCTTATGCTGATGCCCACAGCCTTGGCGTTCCATCTGACTACACGAGGGGGAGAGCCGCACATGATAGTCACCAAGCAGGAAAGAGGAAAGTCACTTTTGTTTAAGACCTCAGCAGGTGTCAACATGTGCACCCTTATAGCGATGGATTTGGGAGAGTTATGTGAGGACACAATGACTTACAAATGCCCTCGAATTACTGAGGCGGAACCAGATGACATTGATTGTTGGTGCAATGCCACAGACACATGGGTGACCTATGGAACATGTTCCCAAACTGGCGAGCACCGACGAGACAAACGTTCCGTCGCACTGGCCCCACACGTAGGACTTGGTTTGGAAACAAGAACCGAAACGTGGATGTCCTCTGAAGGCGCTTGGAAACAGATACAAAGAGTGGAGACTTGGGCCCTGAGACACCCAGGATTCACGGTGATAGCCCTTTTTCTAGCACATGCCATAGGAACATCCATCACCCAGAAAGGGATCATTTTCATTTTGTTAATGCTGGTAACACCATCCATGGCCATGCGATGCGTGGGAATAGGCAGCAGGGACTTCGTGGAAGGACTGT
@averagehat
averagehat / Denv1HumanMetadata.csv
Last active June 13, 2017 18:49
We can't make this file beautiful and searchable because it's too large.
strain,type,disease,accession,year,month,day,country,host,sequence
360052,DengueVirus1,,AB608789,1994,,,Taiwan,HomoSapiens,ATGAACAACCAACGGAAAAAGACGGCTCGACCGTCTTTCAATATGCTGAAACGCGCGAGAAACCGCGTGTCAACTGTTTCACAGTTGGCGAAGAGATTCTCAAAAGGATTGCTCTCAGGCCAAGGACCCATGAAATTGGTGATGGCTTTCATAGCATTCCTAAGATTTCTAGCCATACCCCCAACAGCAGGAATTTTGGCTAGATGGGGCTCATTCAAGAAGAATGGAGCAATCAAAGTGCTACGGGGTTTCAAGAAAGAAATCTCAAACATGTTAAATATAATGAATAGAAGGAAAAGATCTGTGACCATGCTCCTTATGCTGATGCCCACAGCCTTGGCGTTCCATCTGACTACACGAGGGGGAGAGCCGCACATGATAGTCACCAAGCAGGAAAGAGGAAAGTCACTTTTGTTTAAGACCTCAGCAGGTGTCAACATGTGCACCCTTATAGCGATGGATTTGGGAGAGTTATGTGAGGACACAATGACTTACAAATGCCCTCGAATTACTGAGGCGGAACCAGATGACATTGATTGTTGGTGCAATGCCACAGACACATGGGTGACCTATGGAACATGTTCCCAAACTGGCGAGCACCGACGAGACAAACGTTCCGTCGCACTGGCCCCACACGTAGGACTTGGTTTGGAAACAAGAACCGAAACGTGGATGTCCTCTGAAGGCGCTTGGAAACAGATACAAAGAGTGGAGACTTGGGCCCTGAGACACCCAGGATTCACGGTGATAGCCCTTTTTCTAGCACATGCCATAGGAACATCCATCACCCAGAAAGGGATCATTTTCATTTTGTTAATGCTGGTAACACCATCCATGGCCATGCGATGCGTGGGAATAGGCAGCAGGGACTTCGTGGAAGGACTGTCAGGAGCAACTTGGG
@averagehat
averagehat / Poll.hs
Created June 6, 2017 20:56
{-# LANGUAGE OverloadedStrings #-}
module Lib
( someFunc
) where
import Control.Concurrent
import Control.Concurrent.Async
import Data.Foldable (for_)
import Data.Traversable (for)
import Data.Time
import qualfied Data.Text as T
@averagehat
averagehat / Lib.hs
Created December 17, 2016 17:22
module Lib where
import Data.Char(ord,chr,toUpper)
import Data.Word (Word8)
import System.Directory(doesFileExist)
import Control.Applicative
import Bio.Sequence.FastQ (readSangerQ, writeSangerQ)
import Bio.Core.Sequence (BioSeqQual, unSD, seqheader, seqdata, seqqual, unQD, unQual)
import qualified Data.ByteString.Lazy.Char8 as C
import qualified Data.ByteString.Lazy as BB
import Development.Shake
@averagehat
averagehat / files.txt
Last active November 30, 2016 22:05
/media/VD_Research/NGSData/RawData/Roche454/2009_05_19
/media/VD_Research/NGSData/RawData/Roche454/2010_03_19
/media/VD_Research/NGSData/RawData/Roche454/2010_05_11
/media/VD_Research/NGSData/RawData/Roche454/2010_06_09
/media/VD_Research/NGSData/RawData/Roche454/2010_09_23
/media/VD_Research/NGSData/RawData/Roche454/2011_06_15
/media/VD_Research/NGSData/RawData/Roche454/2011_08_11
/media/VD_Research/NGSData/RawData/Roche454/2011_08_31
/media/VD_Research/NGSData/RawData/Roche454/2011_10_19
/media/VD_Research/NGSData/RawData/Roche454/2011_12_23
@averagehat
averagehat / jobstat.hs
Created November 18, 2016 20:58
import Data.List.Split (splitOn)
import qualified Data.Char
import qualified Data.Vector
import qualified Data.ByteString.Lazy as BL
import Data.Either
import Data.Csv as C
{-
$ export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/media/People/michael.panciera/myconda/lib
$ qhistory > history-short.tsv
@averagehat
averagehat / pipes.md
Last active September 9, 2016 20:58
@averagehat
averagehat / foo.java
Created July 27, 2016 17:36
Quality encoding detected as phred33
Exception in thread "main" java.io.IOException: No space left on device
at java.io.FileOutputStream.writeBytes(Native Method)
at java.io.FileOutputStream.write(FileOutputStream.java:356)
at sun.nio.cs.StreamEncoder.writeBytes(StreamEncoder.java:233)
at sun.nio.cs.StreamEncoder.implWrite(StreamEncoder.java:294)
at sun.nio.cs.StreamEncoder.write(StreamEncoder.java:137)
at java.io.OutputStreamWriter.write(OutputStreamWriter.java:244)
at java.io.BufferedWriter.flushBuffer(BufferedWriter.java:140)
at java.io.BufferedWriter.write(BufferedWriter.java:241)