coral tool no permission

smangul1 commented 7 years ago

Who installed coral?

Please add permission so everybody will be able to run

Parth was not able to run it

douglasyao commented 7 years ago

I have it installed in my home directory. Does it work?

smangul1 commented 7 years ago

@douglasyao Are you going to run coral for all datasets? if yes please put your name and "todo" status in the table

Serghei

parthingle commented 7 years ago

Running Pollux tool on T2 using this script

    L1=(64 65 66 67 68 60 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99)

    L2=(00 01 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63)

    for i in `seq 0 34`; do
            /u/home/h/harryyan/scratch/serghei/bless/bless/ -read1 /u/home/n/ngcrawfo/project-zarlab/igor/VIRAL_CORRECTION/tools/data/datasets_no_barcodes_no_index/SRR15439${L1[$i]}.fastq /u/scratch/p/parthing/T2_Pollux/SRR15439${L1[$i]}_out.fastq -kmerlength 15
    done

    for i in `seq 0 63`; do
            /u/home/h/harryyan/scratch/serghei/bless/bless/ -read1 /u/home/n/ngcrawfo/project-zarlab/igor/VIRAL_CORRECTION/tools/data/datasets_no_barcodes_no_index/SRR15440${L2[$i]}.fastq /u/scratch/p/parthing/T2_Pollux/SRR15440${L2[$i]}_out.fastq --kmerlength 15
    done

And I'm still getting a permission denied error:

    run.sh: line 13: /u/home/h/harryyan/scratch/serghei/bless/bless/: Permission denied

Unless I've made some mistake, this script should work fine for someone who has all the permissions

smangul1 commented 7 years ago

Was it solved? Can i close the issue?

smangul1 / ec

coral tool no permission #20