doc improvements

Author: antgonza

CHANGELOG.md

@@ -3,15 +3,15 @@
 Version 2024.09
 ---------------
 
-Deployed on September 23rd, 2024
+Deployed on Octuber 2nd, 2024
 
 * Added update_resource_allocation_redis and companion code, so resource allocations summaries are available for review. Thank you @Gossty!
 * Now is possible to have default workflows with only one step.
 * `qiita_client.update_job_step` now accepts an ignore_error optional parameter. Thank you @charles-cowart!
 * Initial changes in `qiita_client` to have more accurate variable names: `QIITA_SERVER_CERT` -> `QIITA_ROOTCA_CERT`. Thank you @charles-cowart!
 * Added `get_artifact_html_summary` to `qiita_client` to retrieve the summary file of an artifact.
 * Re-added github actions to `https://github.com/qiita-spots/qiita_client`.
-* `Woltka v0.1.6, paired-end` superseded `Woltka v0.1.6` in `qp-woltka`; [more information](https://qiita.ucsd.edu/static/doc/html/processingdata/woltka_pairedend.html). Thank you to @qiyunzhu for the benchmarks!
+* `Woltka v0.1.6, paired-end` superseded `Woltka v0.1.4` in `qp-woltka`; [more information](https://qiita.ucsd.edu/static/doc/html/processingdata/woltka_pairedend.html). Thank you to @qiyunzhu for the benchmarks!
 * Other general fixes, like [#3424](https://github.com/qiita-spots/qiita/pull/3424), [#3425](https://github.com/qiita-spots/qiita/pull/3425).
 
 

qiita_pet/support_files/doc/source/faq.rst

@@ -414,13 +414,18 @@ Are you planning a workshop or class?
 -------------------------------------------------------------------
 
 We encourage users to use Qiita for their classes and/or workshops and to facilitate processing
-we urge  users to request a special reservation in the system. A reservation should help your
+we urge them to request a special reservation in the system. A reservation should help your
 and your participant jobs to move quicker in the system. If you are interested, please send us
 an email to [email protected] and add the name of your workshop/course, the number of
 participants, the expected days this will happen. Note that reservations are only available for
 analysis and not for sequencing processing, and that the reservation can be added/edited during
 the creation of the analysis or at any point within each individual analysis page.
 
+You can add the reservation string to the analysis at the time of creation (bottom of the creation
+page), or the analysis page via the reservation button (top right). Note that once the reservation
+time finished, your jobs will fail as the reservation will no longer exist so you will need to
+remove it - we suggest doing this before submitting new jobs.
+
 How to cite Qiita?
 ------------------
 

qiita_ware/ebi.py

@@ -110,6 +110,7 @@ class EBISubmission(object):
                                     'ILLUMINA MISEQ',
                                     'ILLUMINA MINISEQ',
                                     'ILLUMINA NOVASEQ 6000',
+                                    'ILLUMINA NOVASEQ X',
                                     'NEXTSEQ 500',
                                     'NEXTSEQ 550',
                                     'UNSPECIFIED'],
@@ -539,7 +540,7 @@ def generate_experiment_xml(self, samples=None):
             library_name.text = self._get_library_name(sample_name)
 
             lg = ET.SubElement(library_descriptor, 'LIBRARY_STRATEGY')
-            lg.text = escape(clean_whitespace(library_strategy.upper()))
+            lg.text = escape(clean_whitespace(library_strategy))
 
             # hardcoding some values,
             # see https://github.com/biocore/qiita/issues/1485