RAPT v0.5.3 - teamcity CI

ncbi · Jul 15, 2022 · 3c9a501 · 3c9a501
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diff --git a/README.md b/README.md
@@ -14,7 +14,7 @@ If you are new to RAPT, please visit our [wiki page](https://github.com/ncbi/rap
 
 To use the latest version, download the RAPT command-line interface with the following commands:
 ```
-~$ curl -sSLo rapt.tar.gz https://github.com/ncbi/rapt/releases/download/v0.5.2/rapt-v0.5.2.tar.gz
+~$ curl -sSLo rapt.tar.gz https://github.com/ncbi/rapt/releases/download/v0.5.3/rapt-v0.5.3.tar.gz
 ~$ tar -xzf rapt.tar.gz && rm -f rapt.tar.gz
 ```
 

diff --git a/dist/CHANGELOG.md b/dist/CHANGELOG.md
@@ -1,3 +1,6 @@
+### Release v0.5.3
+# Bugfix: SRA/metadata retrieval methods correction according to the recent change of corresponding services
+
 ### Release v0.5.2
 * PGAP at 2022-04-14.build6021
 * Add `--auto-correct-tax` switch

diff --git a/dist/README.txt b/dist/README.txt
@@ -1,4 +1,4 @@
-Read Assembly and Annotation Pipeline Tool (RAPT) v0.5.2
+Read Assembly and Annotation Pipeline Tool (RAPT) v0.5.3
 
 RAPT is a NCBI pipeline designed for assembling and annotating Illumina genome sequencing reads obtained from bacterial or archaeal isolates. RAPT consists of two major NCBI components, SKESA and PGAP. SKESA is a de-novo assembler for microbial genomes based on DeBruijn graphs. PGAP is a prokaryotic genome annotation pipeline that combines ab initio gene prediction algorithms with homology based methods. RAPT takes an Illumina SRA run or a fasta file as input and produces an assembled and annotated genome. 
 

diff --git a/dist/release-notes.txt b/dist/release-notes.txt
@@ -1,9 +1,9 @@
-RELEASE: v0.5.2
-DATE: 05-04-2022
-BUILD: rapt-38092134
+RELEASE: v0.5.3
+DATE: 07-15-2022
+BUILD: rapt-39223259
 SKESA: 2.5.0
 PGAPX: 2022-04-14.build6021
 
 DESCRIPTION:
 
-This release updates PGAP to 2022-04-14.build6021, and implemented --auto-correct-tax switch: when specified, in the case that the genome sequence is misassigned or contaminated and ANI predicts an organism with HIGH confidence, the system will use the predicted organism for PGAP instead of the one provided by the user.
+This is a bugfix release. The methods to retrieve SRA and metadata have been modified to align with the recent change to the backend services
diff --git a/dist/run_rapt.py b/dist/run_rapt.py
@@ -12,9 +12,9 @@
 ##to be compatible with python2
 from abc import ABCMeta, abstractmethod
 
-IMAGE_URI="ncbi/rapt:v0.5.2"
+IMAGE_URI="ncbi/rapt:v0.5.3"
 
-RAPT_VERSION="rapt-38092134"
+RAPT_VERSION="rapt-39223259"
 
 DEFAULT_REF_DIR = '.rapt_refdata'
 

diff --git a/dist/run_rapt_gcp.sh b/dist/run_rapt_gcp.sh
@@ -1,8 +1,8 @@
 #!/usr/bin/env bash
 
 ###############################* Global Constants *##################################
-IMAGE_URI="ncbi/rapt:v0.5.2"
-RAPT_VERSION="rapt-38092134"
+IMAGE_URI="ncbi/rapt:v0.5.3"
+RAPT_VERSION="rapt-39223259"
 
 GCP_LOGS_VIEWER="https://console.cloud.google.com/logs/viewer"