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Hot fix cosmx dag apr26 #194

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Merged
avikdatta merged 2 commits into from
Apr 1, 2026
Merged

Hot fix cosmx dag apr26 #194

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b8785c3
updated template
avikdatta Apr 1, 2026
8b476af
updated notebook timeout setting
avikdatta Apr 1, 2026
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4 changes: 2 additions & 2 deletions igf_airflow/utils/dag43_cosmx_export_and_qc_utils.py
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Original file line number Diff line number Diff line change
Expand Up @@ -774,7 +774,7 @@ def generate_count_qc_report(
singularity_options=['-C'],
allow_errors=False,
singularity_image_path=COSMX_QC_REPORT_IMAGE1,
timeout=3600,
timeout=18000,
no_input=True)
output_notebook, _ = \
nb.execute_notebook_in_singularity()
Expand Down Expand Up @@ -901,7 +901,7 @@ def generate_fov_qc_report(
singularity_options=['-C', '--no-home'],
allow_errors=False,
singularity_image_path=COSMX_QC_REPORT_IMAGE1,
timeout=3600,
timeout=18000,
no_input=True)
output_notebook, _ = \
nb.execute_notebook_in_singularity()
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2 changes: 1 addition & 1 deletion template/email_notification/cosmx_analysis_update_email_template.txt
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Expand Up @@ -17,7 +17,7 @@ Important notes
- The exported files will remain available on Globus for 30 days and will then be removed.
- For future or repeated exports, you will need to either:
- run exports and QC checks independently, or
- request an AtoMx standalone account for long‑term access and data management.
- request an AtoMx standalone account for long term access and data management.

Our AtoMx account may require cleanup of older slides in the future to make space for new projects.

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