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| #!/Users/smanurung/miniconda3/bin/python | |
| class Person: | |
| name = "foo" | |
| def sayName(self): | |
| return self.name | |
| def setName(self, n): | |
| self.name = n |
smanurung
/ smith_waterman.py
Created
September 9, 2019 04:22
— forked from nornagon/smith_waterman.py
Smith-Waterman Python implementation
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| import numpy as np | |
| def smith_waterman(a: str, b: str, alignment_score: float = 1, gap_cost: float = 1) -> float: | |
| """ | |
| Compute the Smith-Waterman alignment score for two strings. | |
| See https://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_algorithm#Algorithm | |
| This implementation has a fixed gap cost (i.e. extending a gap is considered | |
| free). In the terminology of the Wikipedia description, W_k = {c, c, c, ...}. | |
| This implementation also has a fixed alignment score, awarded if the relevant |
smanurung
/ Dockerfile
Created
July 31, 2017 06:33
Base docker image including python, conda, and supervisor
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| FROM python:2.7-slim | |
| WORKDIR /Users/smanurung/Documents/lab/docker/iris-base/ | |
| RUN apt-get update && apt-get install -y --no-install-recommends apt-utils | |
| RUN yes | apt-get install bzip2 | |
| RUN apt-get install -y curl git supervisor | |
| # # install miniconda for python dependency management | |
| RUN curl "https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh" >> /tmp/miniconda.sh |
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| #!/usr/bin/perl | |
| my $topicdb = 'topic.txt'; | |
| open(my $db, '<', $topicdb) or die $!; | |
| my $count = 0; | |
| my %topic; | |
| while(<$db>){ | |
| if($_ =~ "^--"){ |
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| #!/bin/bash | |
| wd="./src" | |
| t="./template" | |
| o="./output" | |
| fname=$1 | |
| ofile=$o/$fname | |
| echo "$ofile" |
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| package main | |
| /** | |
| * simple go concurrency pattern | |
| * generator + fanIn | |
| */ | |
| import ( | |
| "fmt" | |
| "math/rand" |