The data storage of this platform depends on Tencent Cloud COS to provide file management services to users. Data is stored in COS buckets. Upload and download operations of data files must be completed in COS. The file management page of the platform mainly provides the feature of viewing file directories.
How to Upload a File?
There are three ways to upload files to COS: console upload, command line upload, and data migration.
Are Other Workflow Languages Supported Besides WDL?
The Tencent HealthCare Omics Platform currently only supports WDL language editing of bioinformatics applications. We plan to support more workflow languages (Nextflow, Snakemake, etc.) in the next stage, and related functional modules are under development. If you have more workflow language requirements, contact us to give your feedback.
How to View the Job execution environment and Resource Usage?
1. If you want to view the execution environment and resource usage of a job, you can click Details of the job you want to view on the run details page.
2. The job details page will display the job's execution environment (such as the number of CPU cores, memory specifications, and docker image address) and resource monitoring charts (such as CPU utilization and memory utilization).
How to Upload a Sample Containing Multiple Fastq Files for Analysis?
1. Create a table template. You can refer to the following format settings for a sample table. Each sample_id corresponds to multiple fastq file addresses, set the type to Array[File]. For operations related to creating a table, see Table Management.
2. Upload the table.
3. In the WDL file, define the input file data type as Array[File] and select the corresponding column on the running settings page. For related operations on running settings, see Application Management.
4. Start analysis.
How to Use the Enterprise Tencent Container Registry in the Omics Computing Environment?
If you want to use the Tencent Container Registry Enterprise in the omics computing environment, you need to ensure that you have selected the corresponding image access credential and ensure network integration between the Omics Computing Environment and TCR.
Ensure That You Have Selected the Corresponding Tencent Container Registry Enterprise Credential
Container images are private by default, so when creating an environment, you need to issue the corresponding credentail to the environment. For specific operations, see Operation Guide > Console > Environment Management.
Ensure that the environment is reachable to the Tencent Container Registry Enterprise.
There is no network connection between the omics computing environment and the Tencent Container Registry Enterprise by default, so a network unreachable error will be reported when you pull images from the enterprise image repository.
Solutions
There are two solutions. For specific operations, see corresponding documentation instructions in the following table:
Solutions
Description
Documentation
Solution 1: Private Network Access
On TCR console, create a private network linkage in the same VPC as the Omics Environment and config private network DNS. Then the Omics Environment can access TCR instance through private network.
Yes
No
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