labdao / plex Goto Github PK

    #TODO: validate instructions if it is a dict

labdao % w3 put ganglia/README.md 
# Packed 1 file (0.0MB)
# bafybeiaj7fh6mh2yfzlpis4aozddm2lcsicthekdav4b3lwvfjpvtn2dty
⁂ Stored 1 file
⁂ https://dweb.link/ipfs/bafybeiaj7fh6mh2yfzlpis4aozddm2lcsicthekdav4b3lwvfjpvtn2dty

labdao % ipfs add -r --cid-version=1 ganglia/README.md
added bafkreibhdu66zohpk33uraa4p5u4zfwbv2rqq7edt43xnhke4wwaulwmoq README.md
 1.46 KiB / 1.46 KiB [===========================================================================================================================] 100.00%

labdao % ipfs pin remote add --background --service=pinata-api bafkreibhdu66zohpk33uraa4p5u4zfwbv2rqq7edt43xnhke4wwaulwmoq
CID:    bafkreibhdu66zohpk33uraa4p5u4zfwbv2rqq7edt43xnhke4wwaulwmoq
Name:   
Status: queued

<LabDAO uuid>/
    index.csv
    protein1.pdb
    ligand1.sdf

<LabDAO uuid>/
    index.csv
    protein1.pdb
    ligand1.sdf
    job-<bacal-id>
        outputs
           complexes.pdb
        stdout
        stderr

//TODO

sudo apt install python3-pip

    #TODO: add vina scoring

//TODO

#TODO: introduce guidance on volume mounting, especially mounting multiple volumes

Testing Nvidia Container Toolkit Install
docker: Error response from daemon: failed to create shim task: OCI runtime create failed: runc create failed: unable to start container process: error during container init: error running hook #0: error running hook: exit status 1, stdout: , stderr: Auto-detected mode as 'legacy'
nvidia-container-cli: initialization error: nvml error: driver/library version mismatch: unknown.
ERRO[0000] error waiting for container: context canceled 
````

package main

import (
	"crypto/rand"
	"fmt"
	"io/ioutil"
	"os"
	"testing"

	cid "github.com/ipfs/go-cid"
	mh "github.com/multiformats/go-multihash"
	"github.com/web3-storage/go-w3s-client"
)

func TestPutFile(t *testing.T) {
	client, err := w3s.NewClient(
		w3s.WithEndpoint("https://api.web3.storage"),
		w3s.WithToken(testToken),
	)
	if err != nil {
		t.Fatalf("error creating client: %v", err)
	}

	fileContent := make([]byte, 1024)
	if _, err := rand.Read(fileContent); err != nil {
		t.Fatalf("error generating random bytes: %v", err)
	}

	file, err := ioutil.TempFile("", "")
	if err != nil {
		t.Fatalf("error creating temp file: %v", err)
	}
	defer file.Close()
	defer os.Remove(file.Name())

	if _, err := file.Write(fileContent); err != nil {
		t.Fatalf("error writing to file: %v", err)
	}

	fileBytes, err := ioutil.ReadFile(file.Name())
	if err != nil {
		t.Fatalf("error reading file: %v", err)
	}

	// calculate predicted CID
	// codec 0x70 is dag-pb
	pref := cid.Prefix{
		Version:  1,
		Codec:    uint64(0x70),
		MhType:   mh.SHA2_256,
		MhLength: -1,
	}
	calculatedCid, err := pref.Sum(fileContent)
	if err != nil {
		t.Fatalf("error calculating CID: %v", err)
	}

	// validation that file content and file bytes are the same
	fmt.Printf("fileContent length: %d, first few elements: % x\n", len(fileContent), fileContent[:10])
	fmt.Printf("file length: %d, first few elements: % x\n", len(fileBytes), fileBytes[:10])

	// putFile takes in args of type fs.File, NOT the bytes of the file
	actualCid := putFile(client, file)

	if !calculatedCid.Equals(actualCid) {
		t.Fatalf(`unmatching cids
			expected CID: %s
			actual CID: %s`, calculatedCid, actualCid,
		)
	}
}

fileContent length: 1024, first few elements: 27 25 bc be 8c f5 66 15 a8 6b
file length: 1024, first few elements: 27 25 bc be 8c f5 66 15 a8 6b
Uploading to IPFS via web3.storage... 
CID: bafybeidk2alhga7fztbtiyult7hsawnfhawtspy5a6xzzvjtaxavvfn2fm
--- FAIL: TestPutFile (1.09s)
    ipfs_test.go:77: unmatching cids
                                expected CID: bafybeieqzyhpmacugzcn7mrh6pth6xakrxxudvbn3l5kvdtderadua27wy
                                actual CID: bafybeidk2alhga7fztbtiyult7hsawnfhawtspy5a6xzzvjtaxavvfn2fm