Onedata4Sci: Life science data management solution based on Onedata

Life-science experimental methods generate vast and ever-increasing volumes of data, which provide highly valuable research resources. However, management of these data is nontrivial and applicable software solutions are currently subject to intensive development. The solutions mainly fall into one of the two groups: general data management systems (e.g. Onedata, iRODS, B2SHARE, CERNBox) or very specialised data management solutions (e.g. solutions for biomolecular simulation data, biological imaging data, genomic data). To bridge this gap between them, we provide Onedata4Sci, a prototype data management solution, which is focused on the management of life science data and covers four key steps of the data life cycle, i.e. data acquisition, user access, computational processing and archiving. Onedata4Sci is based on the Onedata data management system. It is written in Python, fully containerised, with the support for processing the stored data in Kubernetes. The applicability of Onedata4Sci is shown in three distinct use cases -- plant imaging data, cellular imaging data, and cryo-electron microscopy data. Despite the use cases covering very different types of data and user patterns, Onedata4Sci demonstrated an ability to successfully handle all these conditions. Complete source codes of Onedata4Sci are available on GitHub (https://github.com/CERIT-SC/onedata4sci), and its documentation and manual for installation are also provided

CESNET/perun-services: Release 3.28.0

<ul> <li>CN and DN attribute values are now escaped in ad_ceitec.</li> <li>mailaliases and ad_user_mu_ucn now use the same attribute for allowing expired members.</li> <li>Extended grace period for students in VUP scripts.</li> <li>Multiple gen scripts converted to use getHashedData.</li> </ul&gt

CESNET/perun-services: Release 3.22.0

<ul> <li>Enhanced service ad_user_mu_ucn.</li> <li>Added perun-send.chain.</li> <li>Added du_info_export service.</li> <li>Added generic_send in Python.</li> <li>Converted services arcgis_mu, hadoop*, hml_json edited to use hashed data.</li> </ul&gt

CESNET/perun-services: v3.36.0

<a href="https://github.com/CESNET/perun-services/compare/v3.35.1...v3.36.0">3.36.0</a> (2022-02-01) Bug Fixes <ul> <li><strong>ldap_it4i:</strong> make send script executable (<a href="https://github.com/CESNET/perun-services/commit/e481a03b54ec9009d9968919212618f2518b806c">e481a03</a>)</li> </ul> Features <ul> <li><strong>ldap_it4i:</strong> generate userPassword only when user has valid password (<a href="https://github.com/CESNET/perun-services/commit/6f92911a95ca4fa7e11fbeb5b2c742a57aaff786">6f92911</a>)</li> </ul&gt

CESNET/perun-services: v8.3.0

<a href="https://github.com/CESNET/perun-services/compare/v8.2.0...v8.3.0">8.3.0</a> (2023-09-04) ⚠ BREAKING CHANGES <ul> <li><p><strong>o365_groups_mu:</strong> When merged, can remove gen-local-dev and send-local-dev changes including descriptions on idm-prod</p> </li> <li><p><strong>o365_groups_mu:</strong> new service propagating to Teams via O365 (<a href="https://github.com/CESNET/perun-services/commit/2cf5d4fb4db89c30f70d1b11916b1f0aa5edbc09">2cf5d4f</a>)</p> </li> <li><strong>vsup_k4:</strong> ignore smartmatch experimental warning (<a href="https://github.com/CESNET/perun-services/commit/64781a32f7811cf39ebdc816e664838281de7a84">64781a3</a>)</li> <li><strong>vsup_tritius:</strong> fixed utf8 encoding (<a href="https://github.com/CESNET/perun-services/commit/2472cd4dc94790f04ccc7cada22e00d58208e4cf">2472cd4</a>)</li> </ul&gt

CESNET/perun-services: v8.5.0

8.5.0 (2023-09-27) ⚠ BREAKING CHANGES atlassian_mu: script needs to be run once with DEACTIVATED_PREFIX_INIT=1 Features atlassian_mu: add 'del_' prefix to inactive users (71afe61) o365_mu_ukb_forward_status: add new service (1f0fe02) Bug Fixes scs_it4i: use send_lib.py, support v2 API (63611f4) vsup_stag: update service for new DB schema (be6835d

CESNET/perun-services: v8.0.0

<a href="https://github.com/CESNET/perun-services/compare/v7.5.0...v8.0.0">8.0.0</a> (2023-07-04) ⚠ BREAKING CHANGES <ul> <li><strong>appdb:</strong> Removed scripts for unused service AppDB. Remove service definition and res:def:appDBContactRole attribute on deployment.</li> </ul> Features <ul> <li> Update bbmri_* gen scripts for after BBMRI migration (<a href="https://github.com/CESNET/perun-services/issues/779">#779</a>) (<a href="https://github.com/CESNET/perun-services/commit/1c186e852259e1337731c3fc035cc173ca14a729">1c186e8</a>)</li> <li><strong>umbraco_mu:</strong> change send script to use BA credentials (<a href="https://github.com/CESNET/perun-services/commit/7f734d546e743a0c63f2103d95d7d687a7ccc947">7f734d5</a>)</li> <li><strong>vsup_ifis:</strong> handle new column STU_GRADUATE (<a href="https://github.com/CESNET/perun-services/commit/15f2abe6e9c95652d148cba1423fc5fc26cd0ebb">15f2abe</a>)</li> <li><strong>zabbix_mu:</strong> send also user's preferred mail (<a href="https://github.com/CESNET/perun-services/commit/1731bdd2abb1ffc3eafb21b6217cf43b212a7248">1731bdd</a>)</li> </ul> Bug Fixes <ul> <li><strong>vsup_ifis:</strong> use column stu_stav instead of stud_stav (<a href="https://github.com/CESNET/perun-services/commit/d0f5439fcfadea50e21ba6159c3ed164ebd78077">d0f5439</a>)</li> </ul> Code Refactoring <ul> <li><strong>appdb:</strong> removed unused service (<a href="https://github.com/CESNET/perun-services/commit/6ce62a0e812304f7bb6786ae940c66ec2c18dce3">6ce62a0</a>)</li> </ul&gt

CESNET/perun-services: v8.2.0

<a href="https://github.com/CESNET/perun-services/compare/v8.1.0...v8.2.0">8.2.0</a> (2023-08-15) New features and notable changes <ul> <li><strong>vsup_ifis:</strong> extend library to support also IS/STAG (<a href="https://github.com/CESNET/perun-services/commit/420efe5c157e84f1e765bcd8b8c0035a73217335">420efe5</a>)</li> <li><strong>vsup_stag:</strong> new service for pushing data to IS/STAG (<a href="https://github.com/CESNET/perun-services/commit/84c8e8c8ff5e20e8d179e22b1d3b317e5d80d164">84c8e8c</a>)</li> </ul&gt

CESNET/perun-services: v3.38.0

<a href="https://github.com/CESNET/perun-services/compare/v3.37.0...v3.38.0">3.38.0</a> (2022-03-14) Bug Fixes <ul> <li><strong>kerberos_renewal_principals:</strong> updated protocol version (<a href="https://github.com/CESNET/perun-services/commit/2bdf62efc4d6ba7bda247d45041ea0e66452d76b">2bdf62e</a>)</li> <li><strong>oidc_with_groups_einfra:</strong> make send script executable (<a href="https://github.com/CESNET/perun-services/commit/3f2cfc4e3cbef73abaaa7b7d124a2e5ee0a94141">3f2cfc4</a>)</li> <li><strong>pbsmon_json:</strong> changed name of the default pbsmon server (<a href="https://github.com/CESNET/perun-services/commit/5e070695981a4e079989e0be524608f80c046eeb">5e07069</a>)</li> </ul> Features <ul> <li><strong>kerberos_renewal_principals:</strong> service parametrization (<a href="https://github.com/CESNET/perun-services/commit/4b60dbcf2314a6da6828ccde4dd619b6870426d3">4b60dbc</a>)</li> <li><strong>openstack_projects:</strong> extend service to include grace period functionality (<a href="https://github.com/CESNET/perun-services/commit/c21b9ee8e3ffdc4e7a0f0aeeec332830674ec12b">c21b9ee</a>)</li> </ul&gt

CESNET/perun-services: v6.1.2

<a href="https://github.com/CESNET/perun-services/compare/v6.1.1...v6.1.2">6.1.2</a> (2023-02-16) Bug Fixes <ul> <li>changes to send scripts from vsup (<a href="https://github.com/CESNET/perun-services/commit/98c0da1a693319368d80dda978381a05dbe9a02d">98c0da1</a>)</li> </ul&gt