Hi
I have been trying to run the same workflow configuration in the FireCloud and locally.
As the FireCloud has been experiencing some issues over the last few days, I've tried to run everything again.
My FireCloud workflow ID is a7746f78-b9a7-403f-a200-ada1f2f2ebc0 and the submission ID is a1a4c51d-b6e9-44d4-8ecf-6751c380f469.
The files below are publicly accessible.
This has been running for more than an hour now, with the following configuration parameters:
AlignmentAndPool_r4_s2.usr_fq_r1_s1→gs://simple-bucket/test_data/meningitidis.fq
AlignmentAndPool_r4_s2.usr_docker_image→dmitriipriporov/firecloud_prodrealign
AlignmentAndPool_r4_s2.usr_fq_r2_s1→gs://simple-bucket/test_data/meningitidis_2.fq
AlignmentAndPool_r4_s2.bwa_index_ann→gs://simple-bucket/test_data/meningitidis.fa.ann
AlignmentAndPool_r4_s2.bwa_index_amb→gs://simple-bucket/test_data/meningitidis.fa.amb
AlignmentAndPool_r4_s2.USR_DISK_TYPE→LOCAL
AlignmentAndPool_r4_s2.USR_MEMORY_GB_SIZE→64
AlignmentAndPool_r4_s2.bwa_index_pac→gs://simple-bucket/test_data/meningitidis.fa.pac
AlignmentAndPool_r4_s2.bwa_index_bwt→gs://simple-bucket/test_data/meningitidis.fa.bwt
AlignmentAndPool_r4_s2.bwa_index_sa→gs://simple-bucket/test_data/meningitidis.fa.sa
AlignmentAndPool_r4_s2.USR_CPU→8
AlignmentAndPool_r4_s2.usr_reference→gs://simple-bucket/test_data/meningitidis.fa
AlignmentAndPool_r4_s2.usr_fq_r2_s2→gs://simple-bucket/test_data/meningitidis_2.fq
AlignmentAndPool_r4_s2.usr_fq_r1_s2→gs://simple-bucket/test_data/meningitidis.fq
AlignmentAndPool_r4_s2.USR_DISK_SIZE→60
At the same time, this takes less about 2 minutes on my laptop, which has about 8Gb of RAM and 4 cores. Attached is the log of the run on my laptop.