View bsplus.example.ttl
@base <http://schema.org/> . | |
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> . | |
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> . | |
@prefix provo: <http://www.w3.org/ns/prov#> . | |
<http://identifiers.org/biosample/SAMN03765156> | |
<mainEntity> [ | |
<additionalProperty> [ | |
<name> "cell line" ; | |
<value> "HeLa-229" ; |
View Dockerfile
ENV DEBIAN_VERSION=buster-20200327 | |
ENV ODGI_COMMIT=5e18490156f08368dae0b25a69e0cf5efa5427ca | |
ENV SPODGI_COMMIT=84a1af531e5381216eeb5035e284167ed886da21 | |
FROM debian:${DEBIAN_VERSION} as odgi_build | |
WORKDIR "/tmp" | |
RUN DEBIAN_FRONTEND=noninteractive \ | |
&& apt-get update -y \ | |
&& apt-get install -y --no-install-recommends \ | |
build-essential \ |
View virtuoso.log
Sat Feb 08 2020 | |
01:57:36 { Loading plugin 1: Type `plain', file `geos' in `../hosting' | |
01:57:36 plain version 1.0.3230 from OpenLink Software | |
01:57:36 GEOS plugin based on Geometry Engine Open Source library from Open Source Geospatial Foundation | |
01:57:36 SUCCESS plugin 1: loaded from ../hosting/geos.so } | |
01:57:36 { Loading plugin 2: Type `plain', file `im' in `../hosting' | |
01:57:36 IM version 0.62 from OpenLink Software | |
01:57:36 Support functions for Image Magick 6.9.9 | |
01:57:36 SUCCESS plugin 2: loaded from ../hosting/im.so } |
View cwl-stat.rb
require 'yaml' | |
require 'json' | |
require 'pp' | |
module CWL | |
class Workflow | |
def initialize(fpath) | |
@workflow = YAML.load(open(fpath)) | |
end |
View wtdbg2.console.txt
$ ls ERR2092776_1.fastq | |
ERR2092776_1.fastq | |
$ docker run -it --rm -v $(pwd):/work -w /work quay.io/inutano/wtdbg2:v2.2 wtdbg2 -g95m -t 32 -i ERR2092776_1.fastq -fo worm.wtdbg2 | |
-- | |
-- total memory 65880284.0 kB | |
-- available 65173720.0 kB | |
-- 12 cores | |
-- Starting program: wtdbg2 -g95m -t 32 -i ERR2092776_1.fastq -fo worm.wtdbg2 | |
-- pid 1 | |
-- date Wed Jul 17 03:38:08 2019 |
View download.go
// https://golangcode.com/download-a-file-with-progress/ | |
package main | |
import ( | |
"fmt" | |
"io" | |
"net/http" | |
"os" | |
"strings" |
View SAMD00000345.ttl
@base <http://schema.org/> . | |
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> . | |
<http://identifiers.org/biosample/SAMD00000345> a <DataRecord>, | |
<BioChemEntity>, | |
<http://purl.obolibrary.org/obo/OBI_0000747>; | |
<additionalProperty> [ | |
a <PropertyValue>; | |
<name> "broad-scale environmental context"; | |
<value> "n.a." |
View SAMD00000345.jsonld
{"@context":{"@base":"http://schema.org/","@vocab":"http://schema.org/","url":{"@type":"http://www.w3.org/2001/XMLSchema#string"},"dateCreated":{"@type":"http://www.w3.org/2001/XMLSchema#dateTime"},"dateModified":{"@type":"http://www.w3.org/2001/XMLSchema#dateTime"},"Sample":{"@id":"http://purl.obolibrary.org/obo/OBI_0000747"},"name":{"@type":"http://www.w3.org/2001/XMLSchema#string"},"value":{"@type":"http://www.w3.org/2001/XMLSchema#string"}},"@type":["DataRecord","BioChemEntity","Sample"],"identifier":"SAMD00000345","dateCreated":"2014-07-30T00:00:00Z","dateModified":"2019-02-18T00:01:52.977Z","isPartOf":{"@type":"Dataset","@id":"https://www.ebi.ac.uk/biosamples/samples"},"datasetPartOf":{"@type":"Dataset","@id":"https://www.ebi.ac.uk/biosamples/samples"},"@id":"http://identifiers.org/biosample/SAMD00000345","name":"SAMD00000345","description":"type strain of Lactobacillus oryzae","url":"https://www.ebi.ac.uk/biosamples/sample/SAMD00000345","additionalProperty":[{"@type":"PropertyValue","name":"INSDC cente |
View SAMEA1652233.jsonld
{ | |
"@context": "http://schema.org", | |
"@type": "DataRecord", | |
"identifier": "biosamples:SAMEA1652233", | |
"dateCreated": "2012-12-31T00:00:00Z", | |
"dateModified": "2018-01-20T06:06:51.993Z", | |
"mainEntity": { | |
"@context": [ | |
"http://schema.org", | |
{ |
View SAMEA1652233.jsonld
{ | |
"@context": "http://schema.org", | |
"@type": "DataRecord", | |
"identifier": "biosamples:SAMEA1652233", | |
"dateCreated": "2012-12-31T00:00:00Z", | |
"dateModified": "2018-01-20T06:06:51.993Z", | |
"mainEntity": { | |
"@context": [ | |
"http://schema.org", | |
{ |
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