pulsarpy.utils

pulsarpy.utils.send_mail(form, from_name)

Sends a mail using the configured mail server for Pulsar. See mailgun documentation at https://documentation.mailgun.com/en/latest/user_manual.html#sending-via-api for specifics.

Parameters:

form – dict. The mail form fields, i.e. ‘to’, ‘from’, …

Returns:

requests.models.Response instance.

Raises:

• requests.exceptions.HTTPError – The status code is not ok.
• Exception – The environment variable MAILGUN_DOMAIN or MAILGUN_API_KEY isn’t set.

Example:

payload = {
    "from"="{} <mailgun@{}>".format(from_name, pulsarpy.MAIL_DOMAIN),
    "subject": "mailgun test",
    "text": "howdy there",
    "to": "nathankw@stanford.edu",
}
send_mail(payload)

pulsarpy.utils.get_exp_of_biosample(biosample_rec)

Determines whether the biosample is part of a ChipseqExperiment or SingleCellSorting Experiment, and if so, returns the associated experiment as a models.Model instance that is one of those two classes. The biosample is determined to be part of a ChipseqExperiment if the Biosample.chipseq_experiment_id attribute is set, meaning that the biosample can be associated to the ChipseqExperiment as a replicate via any of of the following ChipseqExperiment attributes:

ChipseqExperiment.replicates ChipseqExperiment.control_replicates

The biosample will be determined to be part of a SingleCellSorting experiment if the Biosample.sorting_biosample_single_cell_sorting attribute is set, meaning that it is the SingleCellSorting.sorting_biosample.

Parameters:biosample_rec – dict. A Biosample record as returned by instantiating models.Biosample. Raises:Exception – An experiment is not associated to this biosample.