Coscine Python SDK issues
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues
2023-08-21T15:45:46+02:00
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/74
Typo in documentation
2023-08-21T15:45:46+02:00
Sophia Leimer
Typo in documentation
Dear team,
I think there might be a typo in the documentation. Under [Accessing S3 credentials](https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/blob/master/src/docs/usage.md#accessing-s3-credentials) it says
...
Dear team,
I think there might be a typo in the documentation. Under [Accessing S3 credentials](https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/blob/master/src/docs/usage.md#accessing-s3-credentials) it says
resource.s3.access_key_**write** instead of resource.s3.**write**_access_key and
resource.s3.secret_key_**write** instead of resource.s3.**write**_secret_key.
I'm new to Python, so I'm sorry if it's correct and I just misunderstood something.
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/24
[Feature request] Add expected types to metadata form printout
2023-01-28T10:39:26+01:00
Romin
[Feature request] Add expected types to metadata form printout
When playing around with a new application profile, it is not immediately clear which type(s) is/are expected by a field. The application profile creators surely know which type they need to specify, but generic user no 21382174 probably...
When playing around with a new application profile, it is not immediately clear which type(s) is/are expected by a field. The application profile creators surely know which type they need to specify, but generic user no 21382174 probably does not and surely they don't want to look up each type in the .ttl specification of the profile. Therefore it would be nice to have an additional column in the table prinout indicating the type of a metadata field. Oh any while we are at it - the minimum and maximum number of allowed fields, e.g. for lists would be also nice to have.
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/17
Collection of docs/examples/tutorials issues
2022-11-15T13:38:00+01:00
Nicole Parks
Collection of docs/examples/tutorials issues
To help improve the Coscine Python SDK documentation, I am starting this issue to collect things I notice while reading the docs, tutorials, etc.
Here's the first one:
#### S3 credentials access
- correct: https://git.rwth-aachen.de/c...
To help improve the Coscine Python SDK documentation, I am starting this issue to collect things I notice while reading the docs, tutorials, etc.
Here's the first one:
#### S3 credentials access
- correct: https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/blob/master/src/examples/examples.md (resource.s3.access_key_write; resource.s3.secret_key_write)
- incorrect: https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/blob/master/src/examples/tutorial.md (resource.s3.access_key; resource.s3.secret_key)
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/14
Coscine Python SDK Update Version 0.6.0
2022-10-29T06:28:47+02:00
Romin
Coscine Python SDK Update Version 0.6.0
# TODO for v0.6
- [x] Re-incorporate rdflib and simplify application profile interaction
- [x] Apply single-sourcing package suggestion
- [x] Add conda install documentation
- [x] Enhance form validation and validate using regex
- [x] Fi...
# TODO for v0.6
- [x] Re-incorporate rdflib and simplify application profile interaction
- [x] Apply single-sourcing package suggestion
- [x] Add conda install documentation
- [x] Enhance form validation and validate using regex
- [x] Fix recursive directory path handling
- [x] Add test scripts
- [x] new application profiles' size constraints in metadata form
- [x] Enhance README example
- [x] Write community guide for extending the python module and contribute
- [x] ...
2022-03-31
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/13
Missing size not captured for 'rdss3ude', 'rdsude'
2023-11-15T16:24:00+01:00
Niklas Siemer
Missing size not captured for 'rdss3ude', 'rdsude'
I just received the (valid!) error:
```
---------------------------------------------------------------------------
RequirementError Traceback (most recent call last)
<ipython-input-118-3f754bf638cf> in <module>...
I just received the (valid!) error:
```
---------------------------------------------------------------------------
RequirementError Traceback (most recent call last)
<ipython-input-118-3f754bf638cf> in <module>
----> 1 res_form.generate()
~/anaconda3/envs/pyiron_git/lib/python3.8/site-packages/coscine/resource.py in generate(self)
600 }
601 elif data["type"]["displayName"] in ("rds", "rds-s3"):
--> 602 raise RequirementError("rds or rds-s3 require a size parameter!")
603 data["resourceTypeOption"] = size
604
RequirementError: rds or rds-s3 require a size parameter!
```
However, the new resource types 'rdss3ude', 'rdsude' most probably also require the size (Not captured here).
Romin
Romin
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/12
FYI conda-forge package
2022-10-29T06:28:26+02:00
Niklas Siemer
FYI conda-forge package
I usually manage my python packages by conda and I was annoyed to always use pip on top of that (which might cause trouble if updating conda packages in some cases). Thus, I started a PR to get coscine on conda forge:
https://github.com...
I usually manage my python packages by conda and I was annoyed to always use pip on top of that (which might cause trouble if updating conda packages in some cases). Thus, I started a PR to get coscine on conda forge:
https://github.com/conda-forge/staged-recipes/pull/18090
If someone of you wants to be added as maintainer there, just comment this in the mentioned PR and I will add you.
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/10
Feature request: Directly adding members to projects
2022-02-09T16:35:55+01:00
Niklas Siemer
Feature request: Directly adding members to projects
Currently it is possible to `invite` new members via the e-mail address to a project. On the Web-page (and via the API) it is also possible to directly add new members without invitation/e-mail sending.
I would like to have a function t...
Currently it is possible to `invite` new members via the e-mail address to a project. On the Web-page (and via the API) it is also possible to directly add new members without invitation/e-mail sending.
I would like to have a function to do this to keep members between different projects synchronized easily.
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/8
Updating metadata of an object fails
2021-11-29T21:05:53+01:00
Constantin Sander
Updating metadata of an object fails
Updating metadata of an object fails as `MetadataForm` is not imported when not type checking.
(https://git.rwth-aachen.de/coscine/docs/public/coscine-python-client/-/blob/679fc1047bc076e1af26fc704b0cacd6c7826c46/src/coscine/object.py#L89)
Updating metadata of an object fails as `MetadataForm` is not imported when not type checking.
(https://git.rwth-aachen.de/coscine/docs/public/coscine-python-client/-/blob/679fc1047bc076e1af26fc704b0cacd6c7826c46/src/coscine/object.py#L89)
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/7
Objects without metadata (e.g. S3 resources) lead to mixed up metadata to fil...
2021-11-29T21:05:57+01:00
Constantin Sander
Objects without metadata (e.g. S3 resources) lead to mixed up metadata to file mapping
Hi, thank you for your Python client.
However, when using S3 resources with files for which no metadata has been (yet) created, the metadata array of the REST api is missing this entry and the Python client mixes up the metadata for an ...
Hi, thank you for your Python client.
However, when using S3 resources with files for which no metadata has been (yet) created, the metadata array of the REST api is missing this entry and the Python client mixes up the metadata for an object when zipping metadata and files (https://git.rwth-aachen.de/coscine/docs/public/coscine-python-client/-/blob/679fc1047bc076e1af26fc704b0cacd6c7826c46/src/coscine/resource.py#L107).
It can also happen that the S3 object cannot be selected (e.g., to update its metadata) as the zip results in an empty / too small list.
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/4
Problems with new type settings of version 5
2022-10-29T06:29:16+02:00
Niklas Siemer
Problems with new type settings of version 5
In the new version 5, there are some very nice features coming as far as I can tell.
However, importing the new Client results in an error:
```
---------------------------------------------------------------------------
TypeError ...
In the new version 5, there are some very nice features coming as far as I can tell.
However, importing the new Client results in an error:
```
---------------------------------------------------------------------------
TypeError Traceback (most recent call last)
<ipython-input-3-d5185e459cbe> in <module>
----> 1 from coscine import Client
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/__init__.py in <module>
12 ###############################################################################
13
---> 14 from .client import Client
15 from .project import Project
16 from .resource import Resource
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/client.py in <module>
27 from .about import __version__
28 from .exceptions import *
---> 29 from .project import Project
30 from .static import StaticServer
31 from .ProjectForm import ProjectForm
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/project.py in <module>
20 import json
21 from .exceptions import *
---> 22 from .resource import Resource
23 from .ResourceForm import ResourceForm
24 from .ProjectForm import ProjectForm
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/resource.py in <module>
22 from .exceptions import *
23 from .object import Object
---> 24 from .MetadataForm import MetadataForm
25 from .MetadataPresetForm import MetadataPresetForm
26 from .ResourceForm import ResourceForm
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/MetadataForm.py in <module>
13
14 from .exceptions import *
---> 15 from .form import Form
16
17 ###############################################################################
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/form.py in <module>
17 ###############################################################################
18
---> 19 class Form(MutableMapping):
20
21 # Form flags
/mnt/c/Users/Siemer/pyiron_git/other_git_repos/coscine-api-python-client/src/coscine/form.py in Form()
142 ###############################################################################
143
--> 144 def keys(self) -> list[str]:
145 return self._keys.keys()
146
TypeError: 'type' object is not subscriptable
```
As far as I can tell, there are some new definitions of output types causing the problem. While it is intended to have a 'list of strings' as output type here, python tries to subscript the type `list` with the type `str`.
I found such definitions e.g. in
- `project.py` lines 44, 45, 84, 126,
- `resource.py` line 102
- `client.py` lines 53, 109
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/3
Upload of data fails if not in verbose mode
2022-10-29T06:29:20+02:00
Niklas Siemer
Upload of data fails if not in verbose mode
I just tried to upload data to CoScInE using the API in the non-verbose mode and encountered a
```
NameError: free variable 'bar' referenced before assignment in enclosing scope
```
the variable `bar` is only populated in the verbose mo...
I just tried to upload data to CoScInE using the API in the non-verbose mode and encountered a
```
NameError: free variable 'bar' referenced before assignment in enclosing scope
```
the variable `bar` is only populated in the verbose mode, however, used in all cases in the `lambda` function causing the error:
https://git.rwth-aachen.de/coscine/docs/public/coscine-python-client/-/blob/master/src/coscine/coscine.py#L588-592
For now, I just use `client.verbose= True; client.upload... ; client.verbose=False` as a workaround.
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/2
Feature Request: loading filled meta data form from a file
2022-10-29T06:29:23+02:00
Niklas Siemer
Feature Request: loading filled meta data form from a file
To work with existing meta data of a specific file, I would like to receive the filled meta data from of a file. I wrote some function to get such a form, however, this feels very fragile and might not cover every scenario:
```python
def...
To work with existing meta data of a specific file, I would like to receive the filled meta data from of a file. I wrote some function to get such a form, however, this feels very fragile and might not cover every scenario:
```python
def form_with_metadata_from_file(pr, res, filename):
meta_data_of_file = client.get_metadata(res, filename)
actual_meta_data = [val for val in meta_data_of_file['data']['metadataStorage'][0].values()][0]
profile_of_res = client.get_application_profile(res, parse=True)
form = client.MetadataForm(pr, res)
for key in profile_of_res['graph']:
try:
field_val = actual_meta_data[key['path']][0]['value']
field_type = actual_meta_data[key['path']][0]['type']
except KeyError:
field_val = None
field_name = key['name']['en']
if field_val is not None and field_type != 'uri':
form[field_name] = field_val
return form
```
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/83
Update metadata not working
2024-01-31T14:20:52+01:00
Nicole Parks
Update metadata not working
Hi @romin.benfer
There seems to be a problem with the `file.update_metadata(md)` function.
I tested updatng the metadata in a web resource as follows:
```python
import coscine
import logging
logging.basicConfig(level=logging.DEBUG)...
Hi @romin.benfer
There seems to be a problem with the `file.update_metadata(md)` function.
I tested updatng the metadata in a web resource as follows:
```python
import coscine
import logging
logging.basicConfig(level=logging.DEBUG)
TOKEN = 'MY_TOKEN'
client = coscine.ApiClient(TOKEN)
PROJECT: str = "NikkisSandbox"
RESOURCE: str = 'test web'
project = client.project(PROJECT, toplevel=False)
resource = project.resource(RESOURCE)
file = resource.file('myData.txt')
file_md = file.metadata_form()
print(file_md)
file_md['Person'] = 'me'
print(file_md)
file.update_metadata(file_md)
print(resource.file('myData.txt').metadata_form())
```
Output:
```
DEBUG:requests_cache.backends:Initializing backend: filesystem coscine
DEBUG:requests_cache.backends.base:Initialized FileDict with serializer: SerializerPipeline(name=json, n_stages=2)
DEBUG:requests_cache.backends.base:Initialized SQLiteDict with serializer: None
DEBUG:requests_cache.backends.sqlite:Opening connection to /Users/nicoleparks/Library/Caches/coscine/redirects.sqlite:redirects
DEBUG:requests_cache.policy.actions:Cache directives from request headers: CacheDirectives()
DEBUG:requests_cache.policy.expiration:URL https://coscine.rwth-aachen.de/coscine/api/v2/projects?TopLevel=False&PageSize=50 matched pattern "*": 3674576450094852
DEBUG:requests_cache.policy.actions:Pre-read cache checks: disabled by expiration
DEBUG:requests_cache.policy.actions:Post-read cache actions: CacheActions(expire_after=3674576450094852, send_request=True, skip_read=True)
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): coscine.rwth-aachen.de:443
_
(_)
___ ___ ___ ___ _ _ __ ___
/ __/ _ \/ __|/ __| | '_ \ / _ \
| (_| (_) \__ \ (__| | | | | __/
\___\___/|___/\___|_|_| |_|\___|
___________________________________
Coscine Python SDK 0.10.2
https://coscine.de/
DEBUG:urllib3.connectionpool:https://coscine.rwth-aachen.de:443 "GET /coscine/api/v2/projects?TopLevel=False&PageSize=50 HTTP/1.1" 200 None
DEBUG:requests_cache.policy.actions:Pre-write cache checks: disabled by expiration
DEBUG:requests_cache.session:Skipping cache write for URL: https://coscine.rwth-aachen.de/coscine/api/v2/projects?TopLevel=False&PageSize=50
DEBUG:coscine.client:{"data":[{"id":"97cfbb06-2c4d-4b27-9382-e435355a332d","pid":"21.11102/97cfbb06-2c4d-4b27-9382-e435355a332d","name":"SFB 985-A01: Microgel-engineered chemoenzymatic cascades employing whole cells","description":"The project aims at developing a reaction platform for cascade reactions involving whole cells (biocatalyst) with bioinorganic catalysts, in which compatible reaction conditions are mediated via microgels. As a biocatalyst, we use yeast cells displaying on their surface a fungal peroxygenase (UPO) to oxidize polycyclic aromatic compounds. Tailored microgel coatings of the yeast cells are expected to provide a modular system, compatible conditions for cascade reactions, and highly efficient reaction conditions. The copper catalysts are also immobilized in microgels to prevent inactivation and to enable catalyzing complex reactions (oxygenation and oxidation) by tight spatial location even at low concentrations and lower temperatures.","startDate":"2012-06-30T20:00:00","endDate":"2024-01-30T22:00:00","keywords":["microgel","chemistry","sfb 985","polymers","physical chemistry"],"displayName":"A01","principleInvestigators":"Schwaneberg, Ulrich; Herres-Pawlis, Sonja; Möller, Martin","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/0186h8060","displayName":"DWI – Leibniz Institute for Interactive Materials"}],"slug":"8342399","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"db942c25-cbb7-4a65-b79a-7d771a42e32a","pid":"21.11102/db942c25-cbb7-4a65-b79a-7d771a42e32a","name":"SFB 985-A03: Polyampholyte microgels for stimuli-responsive assembly","description":"The project will focus on the colloidal superstructures designed from polyampholyte and temperature-responsive aqueous microgels. The aim is to learn how single microgels will behave within the supracolloidal network in order to understand the macroscopic properties of such systems. This is pivotal to achieve the possibility to tailor on the properties of the colloidal superstructure on demand. The experimental work will focus on the fabrication of supracolloidal structures by microgel assembly in solution and emulsion droplets. The characterization of their structure and properties will be carried out by means of different techniques (light, X-ray and neutron scattering, confocal, cryo-transmission electron microscopy) and further supported by computer simulations.","startDate":"2012-06-30T22:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","sfb 985","polymers"],"displayName":"A03","principleInvestigators":" Pich, Andrij ; Potemkin, Igor ; Richtering, Walter ; Scotti, Andrea","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/00eb1e195","displayName":"Institute of Physical Chemistry"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"7367046","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"35577185-3248-4856-8de5-602f2b8e7ca2","pid":"21.11102/35577185-3248-4856-8de5-602f2b8e7ca2","name":"SFB 985-A06: Surface-bound microgels & microgel superstructures – synthesis, switching and imaging","description":"The binding of microgels to surfaces will enable us to create new microgel superstructures and to investigate the structural properties of microgels and the transport within them with advanced microscopic methods. The directed binding of microgels to surfaces will be facilitated through DNA functionalization, whereby DNA hybridization provides a stimuli-responsiveness in addition to, and independently of, the one of the volume phase transition of the microgels. Thereby, reversible and stimuli-responsive crosslinks can be formed via DNA hybridization, as well, allowing for a control of the mechanical properties of microgels.","startDate":"2012-07-01T00:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","sfb 985","polymers"],"displayName":"A06","principleInvestigators":" Böker, Alexander ; Plamper, Felix ; Simon, Ulrich ; Wöll, Dominik","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/01hsjcv06","displayName":"Czech Academy of Sciences, Institute of Inorganic Chemistry"},{"uri":"https://ror.org/00eb1e195","displayName":"Institute of Physical Chemistry"},{"uri":"https://ror.org/031vc2293","displayName":"TU Bergakademie Freiberg"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"9210294","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"ba383849-08ca-45e9-91cb-3a976801e30e","pid":"21.11102/ba383849-08ca-45e9-91cb-3a976801e30e","name":"A06_demo1","description":"demo for publication data archival, all data added to a single ","startDate":"2012-07-01T00:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","sfb 985","polymers"],"displayName":"A06_demo1","principleInvestigators":" Böker, Alexander ; Plamper, Felix ; Simon, Ulrich ; Wöll, Dominik","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/031vc2293","displayName":"TU Bergakademie Freiberg"},{"uri":"https://ror.org/00eb1e195","displayName":"Institute of Physical Chemistry"},{"uri":"https://ror.org/01hsjcv06","displayName":"Czech Academy of Sciences, Institute of Inorganic Chemistry"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"a06_demo1-56993883","creationDate":"2023-11-29T15:57:43.237","parent":{"id":"35577185-3248-4856-8de5-602f2b8e7ca2"}},{"id":"eb0c2f2d-2644-4f48-85e1-e9b2e88c35af","pid":"21.11102/eb0c2f2d-2644-4f48-85e1-e9b2e88c35af","name":"A06_demo2","description":"Demo to show archiving data belonging to publications in separate resources (one resource = one publication. ","startDate":"2012-07-01T00:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","sfb 985","polymers"],"displayName":"A06_demo2","principleInvestigators":"Wöll, Dominik","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/00eb1e195","displayName":"Institute of Physical Chemistry"},{"uri":"https://ror.org/031vc2293","displayName":"TU Bergakademie Freiberg"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/01hsjcv06","displayName":"Czech Academy of Sciences, Institute of Inorganic Chemistry"}],"slug":"a06_demo2-08440560","creationDate":"2023-11-30T09:23:26.447","parent":{"id":"35577185-3248-4856-8de5-602f2b8e7ca2"}},{"id":"c5185ca2-49ac-487f-945a-80be5f2ed34a","pid":"21.11102/c5185ca2-49ac-487f-945a-80be5f2ed34a","name":"SFB 985-A07: A microgel self-oscillator","description":"This project aims to investigate a self-oscillating microgel system that is driven by continuous-wave laser light. The system consists of a thin ribbon-shaped bilayer with integrated gold nanorods and performs an oscillatory shape motion with chaotic signatures when irradiated with light. The planned work will focus on the quantitative analysis of the microgel self-oscillations through optical measurements and theoretical simulations, and endeavor to enhance the regularity of the self-oscillations for their potential use in engines.","startDate":"2016-02-01T00:00:00","endDate":"2024-01-30T21:00:00","keywords":["microgel","chemistry","sfb 985","polymers"],"displayName":"A07","principleInvestigators":"Mourran, Ahmed ; von Plessen, Gero","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"1964305","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"a2561455-625c-4aba-9f49-3d60641e8652","pid":"21.11102/a2561455-625c-4aba-9f49-3d60641e8652","name":"A1 - Squirrel population","description":"Squirrel population - GPS data from Europe and USA (Testprojekt)","startDate":"2021-12-03T06:32:24.36","endDate":"2031-12-03T00:00:00","keywords":["Testprojekt"],"displayName":"A1 - Squirrel population","principleInvestigators":"Ilona Lang","grantId":"DFG_007","visibility":{"id":"451788b0-aaa1-4419-999d-77a7fa25a080","displayName":"Public"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"2290386"},{"id":"41ea010a-92e2-4caf-8c28-bde8c96ff226","pid":"21.11102/41ea010a-92e2-4caf-8c28-bde8c96ff226","name":"Automating (Meta)Data Transfer to Coscine (RDM II-modular)","description":"Automating metadata transfer to Coscine Workshop","startDate":"2023-11-29T00:00:00","endDate":"2028-11-30T00:00:00","keywords":[],"displayName":"Automating (Meta)Data","principleInvestigators":"Catherine Gonzalez","grantId":"","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"automating-metadata-05605743","creationDate":"2023-11-29T13:51:17.06"},{"id":"392bc5e0-513c-4185-b523-880a80de0e22","pid":"21.11102/392bc5e0-513c-4185-b523-880a80de0e22","name":"SFB 985-B03: Kinetics of volume changes of responsive microgels","description":"This project is concerned with microgels that reveal cononsolvency; i.e. a mixture of two good solvents becomes a poor solvent for the microgel. In the first funding period we focused mainly on the phase behavior and equilibrium properties and especially investigated the H-bonding pattern of the microgels. Various microgels based on N-isopropylacrylamide (NIPAM), N-n-propylacrylamide (NNPAM), N,N-diethylacrylamide (DEAAM) and N-vinylcaprolactam (VCL)) we prepared. The phase behavior of these microgels in water–methanol mixtures was studied by DLS, DSC, SANS, SAXS, NMR, FTIR, as well as by theoretical models. Our equilibrium model is able to reproduce qualitatively correct phase behavior in water/methanol for all 4 polymer systems using COSMO-RS with only one parameter, namely the solvent oxygen - solvent oxygen van-der-Waals parameter, adjusted and used for all systems. For obtaining a cononsolvency effect for NIPAM and NNPAM oligomers, it was not necessary to introduce cooperativity, which is another prominent explanation found in the literature. We assign the differences of the phase behavior of NIPAM and NNPAM oligomers on the one hand and DEAAM and VCL oligomers on the other hand to the amide proton, which is present in NIPAM and NNPAM, but not in the other two systems. ","startDate":"2012-06-30T22:00:00","endDate":"2020-01-30T00:00:00","keywords":["microgel","chemistry","sfb 985","physics"],"displayName":"B03","principleInvestigators":"Richtering, Walter; Bardow, André; Leonhard, Kai","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"b03-09106528","creationDate":"2023-10-31T10:21:36.81","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"218c3c6c-2905-4e65-bd46-a448ac0e6b58","pid":"21.11102/218c3c6c-2905-4e65-bd46-a448ac0e6b58","name":"SFB 985-B04: Microgel synthesis: kinetics, particle formation and reactor modeling ","description":"This project addresses the development and usage of a physically motivated model for process operation and control for microgel synthesis. Experimental studies will be complemented by determination of parameters from quantum chemical calculations. Using the MEXA methodology, the project combines modeling with experimentation to enable better understanding of the synthesis mechanisms. Additionally, the developed model is utilized with model-based methods to synthesize microgels with specific properties or structures efficiently.","startDate":"2012-07-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985"],"displayName":"B04","principleInvestigators":"Leonhard, Kai ; Marquardt, Wolfgang ; Mitsos, Ph.D., Alexander ; Pich, Andrij","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"e2cde3d3-0966-4832-a482-7f5a9a3e15a1","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=403","displayNameDe":"Verfahrenstechnik, Technische Chemie 403","displayNameEn":"Process Engineering, Technical Chemistry 403"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/02nv7yv05","displayName":"Forschungszentrum Jülich"}],"slug":"9358041","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"ca760513-029c-4d91-a953-b86bf801d797","pid":"21.11102/ca760513-029c-4d91-a953-b86bf801d797","name":"SFB 985-B05: Anisometric microgels to construct 3D responsive macroporous matrices to direct and mechanically trigger cells","description":"3D macroporous, responsive constructs are created via anisometric microgel assembly to actuate cells. The internal structure (nanoporosity), mechanical properties, and photo-thermal or magnetic responsiveness of the microgel building blocks will be characterized and optimized for cell culture. The assembly of microgels with complex and rod shapes will provide 3D macroporous, responsive matrices to support and guide cell growth and provide native-like environments. Depending on the network’s properties, microgels’ chemical composition, loaded nanoparticles, and swelling properties, cells will be actuated by the network and studied in response to external triggers, such as light and magnetic fields.","startDate":"2012-07-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","polymers","chemical engineering"],"displayName":"B05","principleInvestigators":"Crassous, Ph.D., Jérôme ; De Laporte, Ph.D., Laura ; Möller, Martin ; Vinogradova, Olga ; Wessling, Matthias","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/02nv7yv05","displayName":"Forschungszentrum Jülich"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"4714019","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"9c8d16bf-fc68-4e8b-a307-e5a84701a06d","pid":"21.11102/9c8d16bf-fc68-4e8b-a307-e5a84701a06d","name":"SFB 985-B08: Microgels at fluid interfaces","description":"Spontaneous adsorption of microgels at oil-water interfaces leads to remarkable effects, such as the deformation upon adsorption, concentration gradients within the microgels, etc. In this project we will investigate what distinguishes microgels from particles and macromolecules, respectively. We study the influence of microgel architecture and chemical composition on their behavior at fluid interfaces. We will synthesize hydrophilic highly branched polymers and microgels with anisotropic shape and investigate highly compressed monolayers of these polymers and microgels. We combine synthesis, physico-chemical experiments and computer simulations.","startDate":"2016-01-31T23:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","polymers"],"displayName":"B08","principleInvestigators":"Möller, Martin ; Potemkin, Igor ; Richtering, Walter ; Rodriguez-Emmenegger, Ph.D., Cesar","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"1344763","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"d63cf946-eb89-49e6-b517-cf6d7bdd92eb","pid":"21.11102/d63cf946-eb89-49e6-b517-cf6d7bdd92eb","name":"SFB 985-B09 - Swelling and association kinetics of polymers at the LCST phase transition","description":"The aim of this project is the determination of the relaxation mechanisms and relaxation times of responsive microgels undergoing a volume phase transition. For a fundamental mechanistic understanding of the volume phase transition kinetics a wide range of length and time scales needs to be covered experimentally. In order to obtain this time-resolved light scattering, optical transmission, and fluorescence experiments, complemented by small-angle X-ray scattering, small-angle neutron scattering, and high-speed video microscopy will be performed. Volume phase transitions will be induced by temperature-, pH- and solvent composition jumps.","startDate":"2021-02-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","polymers","IBI"],"displayName":"B09","principleInvestigators":"Förster, Stephan","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/02nv7yv05","displayName":"Forschungszentrum Jülich"}],"slug":"9738919","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"f210aeb4-84cc-4827-bd15-a13107b2bade","pid":"21.11102/f210aeb4-84cc-4827-bd15-a13107b2bade","name":"SFB 985-C03: Multi-functional microgels targeted towards inflammatory bowel disease (IBD)","description":"In this project, we will develop multifunctional microgels capable of scavenging inflammatory mediators as well as targeting, imaging, and protecting inflamed intestinal tissue. Functionalization of microgel with galectins and adhesion peptides will target the inflamed tissue thereby building a protective microgel layer to prevent secondary bacterial infection. Microgels with scavenging and imaging units will capture the inflammation ligand TNFα and localize at the sites of inflammation. The ultimate goal is to generate therapeutic, diagnostic, and theranostic microgels.","startDate":"2012-07-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","biology","biotechnology"],"displayName":"C03","principleInvestigators":" Elling, Lothar ; Kühne, Alexander ; Sellge, Gernot ; Strnad, Pavel ; Trautwein, Christian ","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"801564c8-ac8e-42e9-8ff5-6ca919cc9786","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=201","displayNameDe":"Grundlagen der Biologie und Medizin 201","displayNameEn":"Basic Research in Biology and Medicine 201"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/00wzqmx94","displayName":"Czech Academy of Sciences, Institute of Biotechnology"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/032000t02","displayName":"University of Ulm"}],"slug":"1327174","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"d4d518f6-db2e-4140-a9b8-a69521a99808","pid":"21.11102/d4d518f6-db2e-4140-a9b8-a69521a99808","name":"SFB 985-C05: Microgels for a combined enzymatic reaction and in situ extraction in liquid-liquid systems","description":"Eine Enzym-katalysierte Reaktion wird mit der Mikrogel-intensivierten Extraktion aus der 2. Förderperiode gekoppelt, um Gleichgewichts-Limitationen und Produkt-Inhibierung zu umgehen. Mit Enzymen beladene Mikrogele werden in einem kontinuierlichen in situ-Trennprozess eingesetzt. Dieses Verfahren weist aufgrund des direkten Zugangs der Reaktanden zum katalytisch-aktiven Zentrum und durch die Möglichkeit des Enzym-Recyclings hohes Potenzial zur Verbesserung des Reaktions-Extraktionsprozess auf. Die Verteilung der in Mikrogele eingebetteten Enzyme und deren Aktivität werden mittels Fluoreszenzmikroskopie untersucht. Mit den kombinierten Ergebnissen werden wir eine kontinuierliche Mini-Plant in Betrieb nehmen.","startDate":"2016-02-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985"],"displayName":"C05","principleInvestigators":"Jupke, Andreas ; Wöll, Dominik","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"e2cde3d3-0966-4832-a482-7f5a9a3e15a1","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=403","displayNameDe":"Verfahrenstechnik, Technische Chemie 403","displayNameEn":"Process Engineering, Technical Chemistry 403"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"2252519","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"0b452d8c-fcae-4982-9992-4ab8beefc19c","pid":"21.11102/0b452d8c-fcae-4982-9992-4ab8beefc19c","name":"SFB 985-C06: Modular colloidal catalysts based on responsive microgels (microgelzymes) ","description":"Microgelzymes, functional microgel catalysts with controlled chemical composition, architecture, morphology, and site-specific distribution of variable catalytically active centers will be synthesized and further evolved to light sensitive microreactors to obtain an enhanced and controllable catalytic performance. The targeted incorporation of specific photoswitches and plasmonic nanoparticles together with tailored zinc complexes as catalysts for the ring-opening polymerization of cyclic esters will allow to control the architecture and morphology by influencing the swelling degree using light. Thereby correlations between the internal structure and the catalytic activity will allow to aim for an optimal catalytic performance.","startDate":"2016-06-30T00:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","sfb 985"],"displayName":"C06","principleInvestigators":"Herres-Pawlis, Sonja; Pich, Andrij; Hecht, Stefan","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"c06-10666657","creationDate":"2023-11-06T09:23:11.89","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"bdb2e06f-86ef-4add-9e72-6048c9db8a48","pid":"21.11102/bdb2e06f-86ef-4add-9e72-6048c9db8a48","name":"SFB985-C07: Interactions of responsive soft microgels with lipid membranes","description":"We will study interaction of responsive microgels with lipid-bilayer membranes – in particular adsorption, wrapping, and self-assembly. Experiments and computer simulations will allow us to understand and predict the physics of microgel-membrane systems. The behavior is affected by a multitude of properties, such as microgel and membrane deformability, chemical forces, and membrane-mediated interactions. We aim to generate fundamental understanding that can be used, inter alia, to design responsive bio-nanostructured materials and to rationalize interactions of soft colloids with complex biological systems such as cells.","startDate":"2020-01-31T23:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","polymers","Experimental and Theoretical Physics of Polymers"],"displayName":"C07","principleInvestigators":"Crassous, Ph.D., Jérôme ; Gompper, Gerhard","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/02nv7yv05","displayName":"Forschungszentrum Jülich"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"9221694","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"4ec482f3-40ce-4e3d-8f3e-89f649717b06","pid":"21.11102/4ec482f3-40ce-4e3d-8f3e-89f649717b06","name":"SFB 985-C08: Microgel-cell interactions","description":"In this project, we will investigate the interactions of soft microgels in the size range of 40–500 nm radius with cells. Through the preparation of microgels that allow the alteration of their structural features non-invasively, on-line, and during their observation, we aim to gain a conceptual understanding of how their properties affect their adsorption to cell surfaces as well as their translocation into cells and, ultimately, their fate inside the cell. We will initially use human embryonic kidney (HEK293) and immortal human cervical cancer cells (HeLa) as both are representative and well-described human cellular model systems. Depending on the progress of parallel SFB projects, we are prepared to include additional relevant cell types in our experimental portfolio.\n\nThe C8N project evolved from the Ramp up Project 6 of the second funding period.","startDate":"2020-06-30T00:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","sfb 985"],"displayName":"C08","principleInvestigators":"Richtering, Walter; Spehr, Marc; Göstl, Robert;","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/02gm5zw39","displayName":"Universitätsklinikum Aachen"}],"slug":"c08-52337054","creationDate":"2023-11-06T09:30:53.23","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"cd124ed8-562e-4741-b480-b0022bea7da1","pid":"21.11102/cd124ed8-562e-4741-b480-b0022bea7da1","name":"SFB 985-C09: Gene regulation enabled by ferro-microgels","description":"Full and hollow magneto-responsive ferro-microgels containing magnetic nanoparticles and aptamer-signal molecule complexes will be designed to control gene expression of bacteria on demand. A small signal molecule will be released from the aptamer-functionalized ferro-microgels via external magnetic fields to generate heat or force. The microgels will be designed to protect the aptamers from nucleases and retain the magnetic particles, while enabling an immediate release of the small molecule. Cells will be shielded from local hot spots, created by alternating magnetic fields. After release, the small molecule can enter cells and trigger a ribo-switch to induce translation. Therefore, the ferro-microgels will have the ability to remotely switch on genes to enable protein production and affect cellular behavior.","startDate":"2020-06-30T00:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","sfb 985"],"displayName":"C09","principleInvestigators":"De Laporte, Laura; Herrmann, Andreas;","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"c09-84055819","creationDate":"2023-11-06T09:34:28.39","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"ae6aa507-27fb-4e1f-84ab-16f1f4c6d320","pid":"21.11102/ae6aa507-27fb-4e1f-84ab-16f1f4c6d320","name":"FDM_Werkstatt","description":"With metadata to better data! (Meta)Data transfer from and to Coscine\n\nThe Coscine research data platform provides an API interface to transfer metadata annotated data to Coscine in automated processes. In the workshop, we will show in small-scale steps how to move data to Coscine using a JupyterNotebook (Python) and Coscine's personal authentication token, and how to specify the metadata using the application profile provided by the application. Prior knowledge of Python is desirable.","startDate":"2023-06-09T00:00:00","endDate":"2023-07-10T00:00:00","keywords":[],"displayName":"FDM_Werkstatt","principleInvestigators":"Nicole Parks, Catherine Gonzalez","grantId":"","visibility":{"id":"451788b0-aaa1-4419-999d-77a7fa25a080","displayName":"Public"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04mz5ra38","displayName":"University of Duisburg-Essen","email":"rds@uni-due.de"},{"uri":"https://ror.org/01k97gp34","displayName":"TU Dortmund University","email":"service.itmc@tu-dortmund.de"},{"uri":"https://ror.org/02gm5zw39","displayName":"Universitätsklinikum Aachen"},{"uri":"https://ror.org/00rcxh774","displayName":"University of Cologne"},{"uri":"https://ror.org/04tqgg260","displayName":"FH Aachen","email":"IT-Support@fh-aachen.de"},{"uri":"https://ror.org/00pd74e08","displayName":"University of Münster"}],"slug":"fdmwerkstatt","creator":{"id":"97a7c614-0626-4a5a-bfa4-a7be2231e182"},"creationDate":"2023-06-09T07:23:35.363"},{"id":"dfa4d173-ad27-4945-9af0-8857a89b1bbc","pid":"21.11102/dfa4d173-ad27-4945-9af0-8857a89b1bbc","name":"FDM-NRW-Werkstatt","description":"Test project for FDM-NRW-Werkstatt","startDate":"2023-06-15T00:00:00","endDate":"2024-06-15T00:00:00","keywords":[],"displayName":"FDM-NRW-Werkstatt","principleInvestigators":"Nikki Parks","grantId":"","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/01k97gp34","displayName":"TU Dortmund University","email":"service.itmc@tu-dortmund.de"}],"slug":"fdm-nrw-werkstatt","creator":{"id":"97a7c614-0626-4a5a-bfa4-a7be2231e182"},"creationDate":"2023-06-15T12:18:09.537"},{"id":"1743e5f9-e963-416c-b03d-83624225bb8b","pid":"21.11102/1743e5f9-e963-416c-b03d-83624225bb8b","name":"Florians Sandkasten","description":"Ein Projekt zu Testzwecken","startDate":"2022-04-14T02:33:51.993","endDate":"2047-09-29T18:00:00","keywords":["Test"],"displayName":"Florians Sandkasten","principleInvestigators":"Florian Claus","grantId":"","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"florians-sandkasten"},{"id":"bdcf5417-04da-4924-90b0-6473ded46b50","pid":"21.11102/bdcf5417-04da-4924-90b0-6473ded46b50","name":"SFB 985-G02: In-line monitoring of microgel production processes","description":"This projects aims at the in-line measurement of monomer and polymer concentration with simultaneous determination of particle number density and particle size distribution. Exploiting the physics of light scattering and turbidity in combination with simultaneously applied Raman spectroscopy will yield a precise measurement of microgel polymerization processes. For the interpretation of the raw data and the calculation of the state variables during the polymerization, complex scattering models will be developed and included in non-linear multivariate regression methods. It is envisaged to develop a novel, integrated spectroscopic and light-scattering probe that enables in-situ measurement and control of the polymerization reaction. ","startDate":"2012-06-30T22:00:00","endDate":"2020-01-30T00:00:00","keywords":["microgel","chemistry","sfb 985","chemical engineering"],"displayName":"G02","principleInvestigators":"Mitsos, Alexander; Janzen, Christoph","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"e2cde3d3-0966-4832-a482-7f5a9a3e15a1","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=403","displayNameDe":"Verfahrenstechnik, Technische Chemie 403","displayNameEn":"Process Engineering, Technical Chemistry 403"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"g02-35477789","creationDate":"2023-11-06T09:39:08.51","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"936da38b-3b7f-4b05-b1e2-fe71a4113654","pid":"21.11102/936da38b-3b7f-4b05-b1e2-fe71a4113654","name":"SFB 985-G03: Quantitative analysis and visualization methods for responsive microgel microscopy data","description":"Microgels observed through single molecule localization microscopy appear as point clouds with points corresponding to the dye molecules. In project G3N, we will develop the computational tools for a comprehensive quantitative analysis of point cloud data, computing features that fully characterize a microgel, measuring and visualizing changes of the soft and deformable microgels under different experimental conditions. Generative models will allow us to make predictions that can be tested experimentally. Combining point cloud data with pixel data from other modalities complements the computational toolkit and holds the promise of a more complete structural description of microgels.","startDate":"2021-02-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","Physical Chemistry of Molecules, Liquids and Interfaces, Biophysical Chemistry"],"displayName":"G03","principleInvestigators":"Merhof, Dorit ; Wöll, Dominik","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"ba3bd5af-a490-4102-b925-1fa94708263f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=303","displayNameDe":"Physikalische und Theoretische Chemie 303","displayNameEn":"Physical and Theoretical Chemistry 303"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"6611511","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"a4926823-5beb-4552-9d89-bcdb4019f275","pid":"21.11102/a4926823-5beb-4552-9d89-bcdb4019f275","name":"SFB 985 - INF: Sample and research data management within a virtual research environment","description":"The INF project continues to provide and support the central web-based platform for the storage and exchange of data, the collaboration among researchers, and the management of samples. It will integrate and automate workflows that produce and curate data, such as dynamic light scattering and other analytical methods. Furthermore, it will introduce an electronic lab notebook (ELN) software (Chemotion) and further the integration of other ELNs that are already in use in some research groups. Finally, it will support researchers in all aspects of their data management.","startDate":"2012-06-30T22:00:00","endDate":"2024-01-30T23:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","FDM","RDM","research data management","sample management","system administration"],"displayName":"INF","principleInvestigators":"Eckert, Thomas ; Herres-Pawlis, Sonja ; Müller, Matthias S. ; Schneider, Ph.D., Stefanie ","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"338c270b-6613-42e0-be9f-e71c45bfd83d","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=304","displayNameDe":"Analytik, Methodenentwicklung (Chemie) 304","displayNameEn":"Analytical Chemistry, Method Development (Chemistry) 304"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"6466162","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"802fddbc-21c3-4a50-b8fa-5f72a39765f3","pid":"21.11102/802fddbc-21c3-4a50-b8fa-5f72a39765f3","name":"SFB 985-MGK: Integrated research training group","description":"The SFB 985 aims at optimally supporting its PhD students in their scientific and personal development to become independent scientists by creating an environment, which promotes interdisciplinary collaboration and networking. Several measures and activities have been developed in the Integrated Research Training group (MGK) to meet these aims and to support the independence, self-determination and networking of the PhD students in the SFB. A lecture series by the project leaders, an international summer school, transferable skill courses and a course in good scientific practice are part of the educational program. Equally important, many occasions for the PhD students to meet, get to know each other and to discuss science are created, e.g. PhD student seminars, PhD student retreats and colloquia.","startDate":"2012-07-01T00:00:00","endDate":"2024-01-31T00:00:00","keywords":["microgel","chemistry","life sciences","sfb 985","MGK","integrated research training group"],"displayName":"MGK","principleInvestigators":"Schneider, Ph.D., Stefanie ; Spieß, Antje ","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"338c270b-6613-42e0-be9f-e71c45bfd83d","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=304","displayNameDe":"Analytik, Methodenentwicklung (Chemie) 304","displayNameEn":"Analytical Chemistry, Method Development (Chemistry) 304"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/010nsgg66","displayName":"Technische Universität Braunschweig"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"5977214","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"8c22ba7c-b8e4-4e75-a19d-c04a244ea464","pid":"21.11102/8c22ba7c-b8e4-4e75-a19d-c04a244ea464","name":"NikkisSandbox","description":"This is just a test.","startDate":"2021-11-03T10:20:55.977","endDate":"2021-11-30T00:00:00","keywords":["testproject","troubleshooting"],"displayName":"NikkisSandbox","principleInvestigators":"Mr. Test","grantId":"","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"6040905"},{"id":"43ace358-9804-4db0-bc81-54952aac5dfd","pid":"21.11102/43ace358-9804-4db0-bc81-54952aac5dfd","name":"RWTH Aachen University Quota Admins - Test Projects","description":"Inside of this project all test projects will be managed from RWTH Quota Admins.\nFor more details see: https://coscine.pages.rwth-aachen.de/docs/public/documentation/de/admins/quota_test_projects","startDate":"2023-03-21T00:00:00","endDate":"2033-04-21T00:00:00","keywords":["Test"],"displayName":"RWTHQuotaAdminTestProject","principleInvestigators":"RDS-Quota Admins of the RWTH Aachen University","grantId":"","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"cfd6b656-f4ba-48c6-b5d8-2f98a7b60d1f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=409","displayNameDe":"Informatik 409","displayNameEn":"Computer Science 409"}],"organizations":[{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"}],"slug":"coscine-test-projects","creator":{"id":"c56573bd-601f-4f36-b55a-f03a9f47fe4c"},"creationDate":"2023-03-21T10:27:51.12"},{"id":"d2f37c7e-230f-426e-9a89-321e12881e68","pid":"21.11102/d2f37c7e-230f-426e-9a89-321e12881e68","name":"Sample Management Archive","description":"This project contains archived data from the SFB 985 sample management system in SharePoint","startDate":"2012-06-30T20:00:00","endDate":"2024-01-30T22:00:00","keywords":["microgel","chemistry","life sciences","sfb 985"],"displayName":"Sample Management Archive","principleInvestigators":"Richtering, Walter; Schwaneberg, Ulrich; Herres-Pawlis, Sonja; Pich, Andrij; Potemkin, Igor; Wöll, Dominik; Simon, Ulrich; von Plessen, Gero.; Mitsos, Alexander.; Leonhard, Kai.; Rodriguez-Emmenegger, Cesar; Wessling, Matthias; De Laporte, Laura; Crassous, Jérôme; Förster, Stephan; Kühne, Alexander; Elling, Lothar; Trautwein, Christian; Strnad, Pavel; Jupke, Andreas; Hecht, Stefan; Gompper, Gerhard; Spehr, Marc; Göstl, Robert; Herrmann, Andreas; Janzen, Christoph; Merhof, Dorit; Müller, Matthias","grantId":"191948804","visibility":{"id":"8ab9c883-eb0d-4402-aaad-2e4007badce6","displayName":"Project Members"},"disciplines":[{"id":"60119210-390d-4a36-9d09-c821c3612a4e","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=301","displayNameDe":"Molekülchemie 301","displayNameEn":"Molecular Chemistry 301"},{"id":"34e51e82-bc4a-466e-8649-3c27e45c94d6","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=306","displayNameDe":"Polymerforschung 306","displayNameEn":"Polymer Research 306"},{"id":"338c270b-6613-42e0-be9f-e71c45bfd83d","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=304","displayNameDe":"Analytik, Methodenentwicklung (Chemie) 304","displayNameEn":"Analytical Chemistry, Method Development (Chemistry) 304"},{"id":"ba3bd5af-a490-4102-b925-1fa94708263f","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=303","displayNameDe":"Physikalische und Theoretische Chemie 303","displayNameEn":"Physical and Theoretical Chemistry 303"},{"id":"e2cde3d3-0966-4832-a482-7f5a9a3e15a1","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=403","displayNameDe":"Verfahrenstechnik, Technische Chemie 403","displayNameEn":"Process Engineering, Technical Chemistry 403"},{"id":"86454a0c-40ab-4a41-9e5e-3694a0ce0580","uri":"http://www.dfg.de/dfg_profil/gremien/fachkollegien/liste/index.jsp?id=205","displayNameDe":"Medizin 205","displayNameEn":"Medicine 205"}],"organizations":[{"uri":"https://ror.org/02gm5zw39","displayName":"Universitätsklinikum Aachen"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/04xfq0f34","displayName":"RWTH Aachen University"},{"uri":"https://ror.org/02nv7yv05","displayName":"Forschungszentrum Jülich"}],"slug":"sample-management-archive","parent":{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b"}},{"id":"1f2925bf-e432-4769-a5ad-4e40cfd0a11b","pid":"21.11102/1f2925bf-e432-4769-a5ad-4e40cfd0a11b","name":"SFB 985: Functional Microgels and Microgel Systems","description":"Research in polymer science focuses more than ever on mimicking complex systems found in nature. The amazing functionalities of living systems are realized by a combination of structural hierarchical organization over many length scales, achieved by self-assembly in an aqueous environment and which also has the ability to respond to external triggers. By means of microgels, we can similarly organize polymers in defined architectures to enhance and vary their function in fields such as catalysis, separation, delivery, and mechanical support. These are all important processes in many applications, ranging from synthesis, scavenging, catalysis and sensors, to medical applications. These considerations set the frame for the research program for the Collaborative Research Center (SFB) 985 Functional Microgels and Microgel Systems and its evolution into its third research period. The unique properties of colloidal microgels as open, water-swollen, and soft polymer networks render them ideal building blocks for applications that require large substrates, containers, and responsivity, or transport via diffusion. Microgels with precisely selected architectures, molecular weights, backbone, side groups, and reactive moieties are synthesized to tailor their function on a molecular level, while their self-assembly and/or crosslinking results in larger, more complex materials entities. Self-organized microgel systems with hierarchical arrangement of molecular entities are characterized by compartmentalization of system functions, leading to complex superstructures with selective and directed transport and shape changing properties, as well as controlled chemical transformation.In the second period, microgels have been fabricated with different sizes, shapes, and architectures, in many cases in continuous processes for upscale. In the third period, the functional use of the microgels will be employed to establish smart bio-inspired materials systems. Microgels can achieve switchable properties that enable adaptability of form and function as they combine properties of dissolved macromolecules with those of colloidal particles. The different multi-functional compartments inside microgels can communicate with each other, while on the other hand, microgels can assemble into or with larger materials constructs to achieve specific functional barriers or scaffolds.Our SFB brings together research groups from polymer science, chemical engineering and life sciences. These groups work in a convergent manner to find new approaches and solutions to existing and emerging challenges. 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Required Controlled Type Range Field Value
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False False str 0 - 1 Category of experiment cine
Required Controlled Type Range Field Value
---------- ------------ ------ ------- ----------------------- --------------------
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DEBUG:requests_cache.policy.actions:Cache directives from request headers: CacheDirectives()
DEBUG:requests_cache.policy.expiration:URL https://coscine.rwth-aachen.de/coscine/api/v2/application-profiles/profiles/https%3A%2F%2Fpurl.org%2Fcoscine%2Fap%2Fcwd%2F?format=text%2Fturtle&PageSize=50 matched pattern "*/api/v2/application-profiles/profiles*": 30 days, 0:00:00
DEBUG:requests_cache.policy.actions:Pre-read cache checks: Passed
DEBUG:requests_cache.policy.actions:Post-read cache actions: CacheActions(expire_after=datetime.timedelta(days=30))
DEBUG:coscine.client:{"data":{"uri":"https://purl.org/coscine/ap/cwd/","definition":{"content":"@base <https://purl.org/coscine/ap/cwd/>.\r\n\r\n@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>.\r\n@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#>.\r\n@prefix xsd: <http://www.w3.org/2001/XMLSchema#>.\r\n@prefix csmd: <http://www.purl.org/net/CSMD/4.0#>.\r\n@prefix dcterms: <http://purl.org/dc/terms/>.\r\n@prefix dc: <http://purl.org/dc/elements/1.1/>.\r\n@prefix dcmitype: <http://purl.org/dc/dcmitype/>.\r\n@prefix sh: <http://www.w3.org/ns/shacl#>.\r\n\r\n<https://purl.org/coscine/ap/cwd#SampleType_name> sh:datatype xsd:string;\r\n sh:maxCount 1 ;\r\n sh:name \"Kategorie Prüfling\"@de,\r\n \"Category of test piece\"@en;\r\n sh:order 6 ;\r\n sh:path csmd:SampleType_name.\r\n<https://purl.org/coscine/ap/cwd#creator> sh:datatype xsd:string;\r\n sh:defaultValue \"{ME}\";\r\n sh:minCount 1 ;\r\n sh:minLength 1 ;\r\n sh:name \"Person\"@en,\r\n \"Person\"@de;\r\n sh:order 2 ;\r\n sh:path dcterms:creator.\r\n<https://purl.org/coscine/ap/cwd#facility_name> sh:datatype xsd:string;\r\n sh:maxCount 1 ;\r\n sh:name \"Test bench name\"@en,\r\n \"Prüfstandsname\"@de;\r\n sh:order 5 ;\r\n sh:path csmd:facility_name.\r\n<https://purl.org/coscine/ap/cwd#institute_unit> sh:datatype xsd:string;\r\n sh:maxCount 1 ;\r\n sh:name \"Institutsbereich\"@de,\r\n \"Institute\"@en;\r\n sh:order 3 ;\r\n sh:path <https://purl.org/rwth/md/form/1.0/institute_unit>.\r\n<https://purl.org/coscine/ap/cwd#investigation_startDate> sh:datatype xsd:date;\r\n sh:defaultValue \"{TODAY}\";\r\n sh:maxCount 1 ;\r\n sh:name \"Datum\"@de,\r\n \"Date\"@en;\r\n sh:order 1 ;\r\n sh:path csmd:investigation_startDate.\r\n<https://purl.org/coscine/ap/cwd#investigationtype_name> sh:datatype xsd:string;\r\n sh:maxCount 1 ;\r\n sh:name \"Kategorie Versuch\"@de,\r\n \"Category of experiment\"@en;\r\n sh:order 7 ;\r\n sh:path csmd:investigationtype_name.\r\n<https://purl.org/coscine/ap/cwd#project> sh:datatype xsd:string;\r\n sh:maxCount 1 ;\r\n sh:name \"Projekt\"@de,\r\n \"Project\"@en;\r\n sh:order 4 ;\r\n sh:path <https://purl.org/rwth/md/form/1.0/project>.\r\n<https://purl.org/coscine/ap/cwd#title> sh:datatype xsd:string;\r\n sh:maxCount 1 ;\r\n sh:minCount 1 ;\r\n sh:minLength 1 ;\r\n sh:name \"Versuchstitel\"@de,\r\n \"Title of the experiment\"@en;\r\n sh:order 0 ;\r\n sh:path dcterms:title.\r\n<https://purl.org/coscine/ap/cwd/> dcterms:license <http://spdx.org/licenses/MIT>;\r\n dcterms:publisher <https://itc.rwth-aachen.de/>;\r\n dcterms:rights \"Copyright © 2020 IT Center, RWTH Aachen University\";\r\n dcterms:title \"cwd application profile\"@en;\r\n a sh:NodeShape;\r\n sh:closed \"1\"^^xsd:boolean;\r\n sh:property [sh:path rdf:type],\r\n <https://purl.org/coscine/ap/cwd#institute_unit>,\r\n <https://purl.org/coscine/ap/cwd#investigation_startDate>,\r\n <https://purl.org/coscine/ap/cwd#facility_name>,\r\n <https://purl.org/coscine/ap/cwd#title>,\r\n <https://purl.org/coscine/ap/cwd#SampleType_name>,\r\n <https://purl.org/coscine/ap/cwd#investigationtype_name>,\r\n <https://purl.org/coscine/ap/cwd#project>,\r\n <https://purl.org/coscine/ap/cwd#creator>;\r\n sh:targetClass <https://purl.org/coscine/ap/cwd/>.\r\n","type":"text/turtle"}},"statusCode":200,"isSuccess":true,"traceId":"0HN0S0532PUHU:00000097"}
DEBUG:requests_cache.policy.actions:Cache directives from request headers: CacheDirectives()
DEBUG:requests_cache.policy.expiration:URL https://coscine.rwth-aachen.de/coscine/api/v2/projects/8c22ba7c-b8e4-4e75-a19d-c04a244ea464/resources/72610864-f047-47e1-9093-1dea227bfdb7/trees/metadata?Path=myData.txt&PageSize=50 matched pattern "*": 3674576450094852
DEBUG:requests_cache.policy.actions:Pre-read cache checks: disabled by expiration
DEBUG:requests_cache.policy.actions:Post-read cache actions: CacheActions(expire_after=3674576450094852, send_request=True, skip_read=True)
DEBUG:urllib3.connectionpool:https://coscine.rwth-aachen.de:443 "GET /coscine/api/v2/projects/8c22ba7c-b8e4-4e75-a19d-c04a244ea464/resources/72610864-f047-47e1-9093-1dea227bfdb7/trees/metadata?Path=myData.txt&PageSize=50 HTTP/1.1" 200 1347
DEBUG:requests_cache.policy.actions:Pre-write cache checks: disabled by expiration
DEBUG:requests_cache.session:Skipping cache write for URL: https://coscine.rwth-aachen.de/coscine/api/v2/projects/8c22ba7c-b8e4-4e75-a19d-c04a244ea464/resources/72610864-f047-47e1-9093-1dea227bfdb7/trees/metadata?Path=myData.txt&PageSize=50
DEBUG:coscine.client:{"data":[{"version":"1706100477","availableVersions":["1687179644","1706100477"],"definition":{"content":"@base <https://purl.org/coscine/resources/72610864-f047-47e1-9093-1dea227bfdb7/myData.txt/@type=metadata&version=1706100477>.\r\n\r\n@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>.\r\n@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#>.\r\n@prefix xsd: <http://www.w3.org/2001/XMLSchema#>.\r\n\r\n_:b15705362 <http://purl.org/dc/terms/creator> \"Nikki Parks\";\r\n <http://purl.org/dc/terms/title> \"experimental title\";\r\n <http://www.purl.org/net/CSMD/4.0#SampleType_name> \"cos\";\r\n <http://www.purl.org/net/CSMD/4.0#facility_name> \"bugs\";\r\n <http://www.purl.org/net/CSMD/4.0#investigation_startDate> \"2023-04-24\"^^xsd:date;\r\n <http://www.purl.org/net/CSMD/4.0#investigationtype_name> \"cine\";\r\n a <https://purl.org/coscine/ap/cwd/>;\r\n <https://purl.org/rwth/md/form/1.0/institute_unit> \"IT Center\";\r\n <https://purl.org/rwth/md/form/1.0/project> \"Coscine exterminator\".\r\n","type":"text/turtle"},"path":"myData.txt","type":"Leaf"}],"statusCode":200,"isSuccess":true,"traceId":"0HN0S0532PUJM:00000008","pagination":{"currentPage":1,"totalPages":1,"pageSize":50,"totalCount":1,"hasPrevious":false,"hasNext":false}}
Required Controlled Type Range Field Value
---------- ------------ ------ ------- ----------------------- --------------------
True False str 1 - 1 Title of the experiment experimental title
False False date 0 - 1 Date 2023-04-24
True False str 1 - 128 Person Nikki Parks
False False str 0 - 1 Institute IT Center
False False str 0 - 1 Project Coscine exterminator
False False str 0 - 1 Test bench name bugs
False False str 0 - 1 Category of test piece cos
False False str 0 - 1 Category of experiment cine
```
I ran a check using the API (via Python requests) and was able to update the metadata without a problem.
Romin
Romin
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/82
Handling XML duration in python
2024-01-31T14:23:56+01:00
Paul Kießling
Handling XML duration in python
Hi there,
in my application profile I have the field "Duration Experiment" of type xs:duration.
I am trying to supply a `datetime.timedelta` for this field, however the type checking demands a `datetime.datetime` which does not really m...
Hi there,
in my application profile I have the field "Duration Experiment" of type xs:duration.
I am trying to supply a `datetime.timedelta` for this field, however the type checking demands a `datetime.datetime` which does not really make sense for a duration.
Would it be possible to support `datetime.timedelta` ?
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/81
Downloading a specific file with the new API
2023-12-05T10:03:40+01:00
Paul Kießling
Downloading a specific file with the new API
Hi I am updating my scripts to work with the new Coscine Python SDK.
I am struggling to download a specific file from Coscine to a specific local folder.
Previously I was doing:
```
PROCESSED_RESOURCE.object(TARGET_FOLDER + "/" +
...
Hi I am updating my scripts to work with the new Coscine Python SDK.
I am struggling to download a specific file from Coscine to a specific local folder.
Previously I was doing:
```
PROCESSED_RESOURCE.object(TARGET_FOLDER + "/" +
METADATA_FILE).download(CACHE_FOLDER)
```
I guess that the new equivalent would be:
```
PROCESSED_RESOURCE.file(TARGET_FOLDER + "/" +
METADATA_FILE).download(path=CACHE_FOLDER)
```
However, this results in the error:
```
File "/Users/me/mambaforge/envs/mermaid/lib/python3.12/site-packages/coscine/resource.py", line 1089, in download
with open(path, "wb") as fp:
FileNotFoundError: [Errno 2] No such file or directory: '/CACHE_FOLDER/TARGET_FOLDER/METADATA_FILE'
```
I am only able to download the file if the target local path already contains a folder with the same name as the parent folder of the file in coscine.
**Example:**
**Works:**
```
target_path = Path("/Users/me/Software_Projects/mermaid/mermaid/.cache/my_experiment")
target_path.mkdir(parents=True, exist_ok=True)
PROCESSED_RESOURCE.file("/my_experiment/experiment.json").download(path=
"/Users/me/Software_Projects/mermaid/mermaid/.cache/")
```
**Error:**
```
PROCESSED_RESOURCE.file("/my_experiment/experiment.json").download(path=
"/Users/me/Software_Projects/mermaid/mermaid/.cache/")
```
I just want to download experiment.json to .cache without having to create additional folders.
Am I doing something wrong?
Thank you!
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/79
Issue with Byte size display and the metadata form display
2023-11-20T18:31:40+01:00
Catherine Gonzalez
Issue with Byte size display and the metadata form display
I used my Coscine Upload page which runs code to extract metadata from the .fcs and -.lmd files, fills the metadata form, and uploads the file and metadata form to Coscine. When I check in Coscine the file size appears to be 0 bytes. The...
I used my Coscine Upload page which runs code to extract metadata from the .fcs and -.lmd files, fills the metadata form, and uploads the file and metadata form to Coscine. When I check in Coscine the file size appears to be 0 bytes. The metadata form only shows the default data of anaylsis but the rest of the metadata form is blank. I can download the file from Coscine so the file appears to be in Coscine. Please see image below for reference:
![image](/uploads/ef776bda76a2feed0a28f062b1e355b1/image.png)
I tried to upload a file using the Coscine website and it still shows the size as 0 bytes and the form is filled out with the metadata I entered. I can still download the file. Please see below:
![image](/uploads/3fcf1add189c38edb8925613477621ea/image.png)
Is this an issue with Coscine?
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/78
[20231011-0250] Inquiry about File Location Issues in Bundled Environment
2023-11-15T16:23:03+01:00
Katja Jansen
[20231011-0250] Inquiry about File Location Issues in Bundled Environment
Ticket from the service desk:
> I am reaching out to you because I have encountered an issue related to file locations when bundling my application with PyInstaller. In my development environment, the Coscine library works seamlessly w...
Ticket from the service desk:
> I am reaching out to you because I have encountered an issue related to file locations when bundling my application with PyInstaller. In my development environment, the Coscine library works seamlessly without any issues. However, when I bundle the application using PyInstaller, the library seems to be expecting a project.json file in a specific location (C:\\Users\\user\\AppData\\Local\\Temp\\_MEI182842\\coscine\\data\\project.json), which is causing file not found errors.
>
> Upon researching this issue, I have reviewed the library documentation and PyInstaller configuration, but I have not been able to identify a solution. I wanted to reach out to your team to inquire if there are specific guidelines or best practices for using the Coscine library in bundled applications. It appears that the library may be relying on specific file locations or configurations that are not being met in the bundled environment.
>
> I am seeking your guidance on how to properly configure or utilize the Coscine library in a bundled environment. If there are any specific steps, configurations, or considerations that I should be aware of when bundling an application that uses the Coscine API, I would greatly appreciate your insights.
@romin.benfer Hast du da irgendeine Idee zu?
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/77
Coscine Python API Large Upload Error [20230928-0823]
2023-10-11T16:04:13+02:00
Lukas C. Bossert
Coscine Python API Large Upload Error [20230928-0823]
We received an issue from the customer, who is wondering about the upload speed.
After 2 hours uploading he receives the following error (I redacted the PID in the url):
```
------------------------------------------------------------...
We received an issue from the customer, who is wondering about the upload speed.
After 2 hours uploading he receives the following error (I redacted the PID in the url):
```
---------------------------------------------------------------------------
HTTPError Traceback (most recent call last)
File ~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/coscine/client.py:382, in Client._request(self, method, uri, **kwargs)
381 response = self.session.request(method, uri, **kwargs)
--> 382 response.raise_for_status()
383 logger.debug("response: %s", str(response.content))
File ~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/requests/models.py:1021, in Response.raise_for_status(self)
1020 if http_error_msg:
-> 1021 raise HTTPError(http_error_msg, response=self)
HTTPError: 500 Server Error: Internal Server Error for url:
https://coscine.rwth-aachen.de/coscine/api/Coscine.Api.Blob/Blob/XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX?path=Raw%2BData.zip
The above exception was the direct cause of the following exception:
RuntimeError Traceback (most recent call last)
Cell In[7], line 2
1 metadata = form.generate()
----> 2 resource.upload(File, FileAddress, metadata)
File ~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/coscine/resource.py:537, in Resource.upload(self, key, file, metadata, callback)
535 with open(file, "rb") as file_handle:
536 self._upload_file_metadata(key, metadata)
--> 537 self._upload_file_data(key, file_handle, callback)
538 else:
539 raise TypeError("Argument `file` has unexpected type!")
File ~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/coscine/resource.py:571, in Resource._upload_file_data(self, key, file_handle, callback)
569 headers = {"Content-Type": monitor.content_type}
570 params = {"path": key}
--> 571 self.client.put(uri, data=monitor, headers=headers, params=params)
File ~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/coscine/client.py:463, in Client.put(self, uri, **kwargs)
432 def put(self, uri: str, **kwargs) -> requests.Response:
433 """
434 Performs a PUT request to the Coscine API.
435
(...)
460 The response of the Coscine server as a requests.Response object.
461 """
--> 463 return self._request("PUT", uri, **kwargs)
File ~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/coscine/client.py:390, in Client._request(self, method, uri, **kwargs)
388 if exc.response.status_code == 401:
389 raise PermissionError("Invalid Coscine API token!") from exc
--> 390 raise RuntimeError(
391 "Unspecified error occurred when communicating "
392 "with the Coscine servers"
393 ) from exc
RuntimeError: Unspecified error occurred when communicating with the Coscine servers
```
@romin.benfer is the abortion of the upload process due to a time out?
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/76
API resource list error
2023-12-05T09:49:28+01:00
Katja Jansen
API resource list error
We´ve got a ticket with this input:
could you please help me to solve an error for listing the items in my
resource when I am using the Python API? I
am using Coscine 0.9.5.
project = client.project('iAMB-Theses & Reports')
resource...
We´ve got a ticket with this input:
could you please help me to solve an error for listing the items in my
resource when I am using the Python API? I
am using Coscine 0.9.5.
project = client.project('iAMB-Theses & Reports')
resource = project.resource('Thesis and Reports')
print(resource.metadata_form())
for file in resource.objects():
print(file.name)
Error:
File
~/anaconda3/envs/iambjudas/lib/python3.9/site-packages/coscine/resource.py:447,
in Resource.objects(self, path)
445 metadata: dict = {}
446 for meta in metadata_storage:
--> 447 key: str = list(meta.keys())[0]
448 if f"{self.id}/{quote(data['Path'])}" in key:
449 metadata = meta
IndexError: list index out of range
@romin.benfer Can you help? If there is no personal information inside, you can also make it unconfidential, that I can tag the user to see your response :slight_smile:
https://git.rwth-aachen.de/coscine/community-features/coscine-python-sdk/-/issues/75
Publishing data stored in Coscine
2023-11-20T18:18:20+01:00
Viktor Todosijevic
Publishing data stored in Coscine
Hi, I would like to publish a dataset and create a Python package that would provide functionality to download this dataset.
As I understand, to download a file/resource, I first gain access by providing my token, so I'd have to store t...
Hi, I would like to publish a dataset and create a Python package that would provide functionality to download this dataset.
As I understand, to download a file/resource, I first gain access by providing my token, so I'd have to store that token somewhere in my package repo, which I don't want because it would give anyone the access that I have.
Is there a way to give anyone access to download the resource/file and nothing else?
Thanks!