samuell

package main

import (
    sp "github.com/scipipe/scipipe"
)

func main() {
    wf := sp.NewWorkflow("hello_world", 4)

    hello := wf.NewProc("hello", "echo 'Hello ' > {o:out}")

samuell

package main

import (
    sp "github.com/samuell/scipipe"
)

func main() {
    hello := sp.Sh("echo foo > {o:out}")
    hello.OutPathFuncs["out"] = func() string {
        return "hello.txt"

samuell

// -------------------------
// Option A
// -------------------------
merge := wf.NewProc("merge_"+ind, "bwa sampe {i:ref} {i:sai1} {i:sai2} {i:fq1} {i:fq2} > {o:merged} # {i:refdone} {p:ind}",
merge.InParam("ind").FromStr(ind)
merge.In("ref").From(ungzipRef.Out("out"))
merge.In("refdone").From(indexRef.Out("done"))
merge.In("sai1").From(outs[ind]["1"]["sai"])
merge.In("sai2").From(outs[ind]["2"]["sai"])
merge.In("fq1").From(outs[ind]["1"]["fastq"])

samuell

parent(mark, jim).
parent(sam, mark).

grandparent(Grandparent, Child) :-
    parent(Grandparent, Parent),  
    parent(Parent, Child).

samuell

SELECT ?s ?p ?o WHERE { ?s ?p ?o }

samuell

package main

import (
	"encoding/csv"
	"encoding/xml"
	"io"
	"os"

	sp "github.com/scipipe/scipipe"
)

samuell

We couldn’t find that file to show.

samuell

cat {i:targetdata} > {o:filledup} && \
  let "fillup_lines_cnt = "$(wc -l {i:targetdata} | awk '{ printf $1 }')" * 2" && \
  tail -n +2 {i:rawdata} \
  | awk -F"\t" '$9 != "{p:gene}" { $12 "\tN" }' \
  | sort \
  | uniq \
  | shuf --random-source={i:randsrc} \
  | head -n $fillup_lines_cnt \
  >> {o:filledup}

samuell

package main

import "fmt"

func main() {
	bufSize := 1 // Try changing this to 0, and see what happens!

	ch1, ch2, ch3 := make(chan int, bufSize), make(chan int, bufSize), make(chan int, bufSize)

	go func() {

samuell

package main

import "fmt"

func main() {
	// Create a new concrete IP of type `fileIP`, and populate with two tags
	aFileIp := &fileIp{tags: map[string]string{"name": "Rolf", "likes": "Coffee"}}

	// Call the function printTags(), which takes the interface `IP`
	printTags(aFileIp)