permission denied on PV files in TESK tasks

[xhejtman]

Hi,

in k8s, privileges are not managed in the same way as in openshift and if a pod needs to access files on PV, additional setup to containers needs to be done like this: initContainers: - name: volume-permissions image: busybox imagePullPolicy: {{ .Values.mongodb.pullPolicy | quote }} command: ["chown", "-R", "{{ .Values.mongodb.securityContext.runAsUser }}:{{ .Values.mongodb.securityContext.fsGroup }}", "{{ .Values.mongodb.mountPath }}"] securityContext: runAsUser: 0 volumeMounts: - name: mongodb-data mountPath: {{ .Values.mongodb.mountPath }}

as task containers are managed by TESK-api pod, it is something that needs to be fixed in TESK.

Otherwise, tasks are failing with e.g.: [bwa_index] Pack FASTA... [bns_fasta2bntseq] fail to open file '/ZTTROm/hs37d5.fa.pac' : Permission denied