© 2018 The Board of Trustees of the Leland Stanford Junior University.

encode_utils

Tools that are useful to any ENCODE Consortium submitting group, as well as the general community working with ENCODE data. Library and scripts are coded in Python.

See the wiki to get started.

API and script documentation are available on Read the Docs.

Latest news

Oct. 16, 2018

Bug fixes in Master:

1. Fixed bug reported by Jennifer Jou where the profile.Profile._set_profile_id() method didn't properly singularize the profile ID in all cases. Fixed this by using the inflection module's singularize function.
2. Fixed bug where eu_register.py's typecast() function didn't check for booleans to typecaset to. That meant that the registration script didn't always handle boolean fields propertly. Thanks again to jjou for reporting.

New in Master:

1. 10/23/2018 Added new script eu_get_accessions.py. Given an input list of record aliases, retrieves the DCC accession for each.

Updates in Master:

1. Renamed utils.clean_alias_name() to utils.clean_aliases. This function now takes a list of aliases and either removes or replaces non-permitted characters, such as "/" and "#". This function is called in the pre-submit hook.

---

Oct. 11, 2018

Release 2.4.0

---

Aug 9, 2018

Release 2.3.1. Adds support to transfer from S3 to GCP (see release notes from 2.3.0).

---

Jun 15, 2018

Release 1.5.2

---

June 7, 2018

Release 1.5.1

---

May 21, 2018

Release 1.5.0

---

May 10, 2018

Release 1.4.1

---

May 4, 2018

Release 1.4.0.

---

Apr. 5, 2018

Release 1.3.0.

---

Apr. 3, 2018

Release 1.2.1.

---

Mar. 26, 2018

Release 1.2.0.

---

Feb. 23, 2018

Release 1.1.3.

---

Feb. 15, 2018

Release 1.1.1.

---

Feb. 12, 2018

Release 1.0.0.