Delete old flow cell before adding re-demultiplexed flow cell (#2593)…

…(minor))

### Changed
- Removed `Delete_flow_cell_API`
- Removed the `cg demultiplex delete-flow-cell` CLI command
- No longer checks for active cases before removing stuff (Does one not always want to restart with new data?)
#### Before post-processing:
- The sequencing_metrics are removed from status_db
- The sequencing files (FASTQ, SPRING, SPRING-metadata) are removed from housekeeper and disk

cg/cli/demultiplex/base.py

@@ -7,7 +7,6 @@
     confirm_flow_cell_sync,
     copy_novaseqx_flow_cells,
     create_manifest_files,
-    delete_flow_cell,
     demultiplex_all,
     demultiplex_flow_cell,
 )
@@ -27,7 +26,6 @@ def demultiplex_cmd_group():
 for sub_cmd in [
     create_manifest_files,
     confirm_flow_cell_sync,
-    delete_flow_cell,
     demultiplex_flow_cell,
     demultiplex_all,
     finish_group,

cg/cli/demultiplex/demux.py

@@ -13,7 +13,6 @@
 )
 from cg.constants.demultiplexing import OPTION_BCL_CONVERTER, DemultiplexingDirsAndFiles
 from cg.exc import FlowCellError
-from cg.meta.demultiplex.delete_demultiplex_api import DeleteDemuxAPI
 from cg.meta.demultiplex.utils import (
     create_manifest_file,
     is_flow_cell_sync_confirmed,
@@ -121,66 +120,6 @@ def demultiplex_flow_cell(
         )
 
 
-@click.command(name="delete-flow-cell")
-@click.option(
-    "-f",
-    "--flow-cell-name",
-    required=True,
-    help="The name of the flow cell you want to delete, e.g. HVKJCDRXX",
-)
-@click.option(
-    "--demultiplexing-dir", is_flag=True, help="Delete flow cell demultiplexed dir on file system"
-)
-@click.option("--housekeeper", is_flag=True, help="Delete flow cell in housekeeper")
-@click.option("--init-files", is_flag=True, help="Delete flow cell init-files")
-@click.option("--run-dir", is_flag=True, help="Delete flow cell run on file system")
-@click.option(
-    "--sample-lane-sequencing-metrics",
-    is_flag=True,
-    help="Delete flow cell in sample lane sequencing metrics",
-)
-@click.option(
-    "--status-db",
-    is_flag=True,
-    help="Delete flow cell in status-db, if passed all other entries are also deleted",
-)
-@click.option("--yes", is_flag=True, help="Pass yes to click confirm")
-@DRY_RUN
-@click.pass_obj
-def delete_flow_cell(
-    context: CGConfig,
-    dry_run: bool,
-    demultiplexing_dir: bool,
-    housekeeper: bool,
-    init_files: bool,
-    run_dir: bool,
-    sample_lane_sequencing_metrics: bool,
-    status_db: bool,
-    yes: bool,
-    flow_cell_name: str,
-):
-    """Delete a flow cell. If --status-db is passed then all other options will be treated as True."""
-
-    delete_demux_api: DeleteDemuxAPI = DeleteDemuxAPI(
-        config=context, dry_run=dry_run, flow_cell_name=flow_cell_name
-    )
-
-    if yes or click.confirm(
-        f"Are you sure you want to delete the flow cell from the following databases:\n"
-        f"Housekeeper={True if status_db else housekeeper}\nInit_files={True if status_db else init_files}\n"
-        f"Run-dir={True if status_db else run_dir}\nStatusdb={status_db}\n"
-        f"\nSample-lane-sequencing-metrics={True if sample_lane_sequencing_metrics else sample_lane_sequencing_metrics}"
-    ):
-        delete_demux_api.delete_flow_cell(
-            demultiplexing_dir=demultiplexing_dir,
-            housekeeper=housekeeper,
-            init_files=init_files,
-            sample_lane_sequencing_metrics=sample_lane_sequencing_metrics,
-            run_dir=run_dir,
-            status_db=status_db,
-        )
-
-
 @click.command(name="copy-completed-flow-cell")
 @click.pass_obj
 def copy_novaseqx_flow_cells(context: CGConfig):