Repository 'prot_scriber'
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/prot_scriber

Changeset 1:1e9a43cbf524 (2022-06-15)
Previous changeset 0:c840a1c77a0a (2022-05-10) Next changeset 2:4d4df9779b7b (2022-09-20)
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prot-scriber commit ad83f6e032963de05c74bd65046e387715de2c6c
modified:
prot-scriber.xml
test-data/8_Proteins_prot-scriber.out
test-data/8_Proteins_vs_Trembl_blastp.txt
b
diff -r c840a1c77a0a -r 1e9a43cbf524 prot-scriber.xml
--- a/prot-scriber.xml Tue May 10 13:18:05 2022 +0000
+++ b/prot-scriber.xml Wed Jun 15 08:37:03 2022 +0000
b
@@ -1,7 +1,7 @@
 <tool id="prot_scriber" name="prot-scriber" version="@TOOL_VERSION@" profile="21.05">
   <description>Protein annotation of short human readable descriptions</description>
   <macros>
-    <token name="@TOOL_VERSION@">0.1.1</token>
+    <token name="@TOOL_VERSION@">0.1.3</token>
   </macros>
   <requirements>
     <requirement type="package" version="@TOOL_VERSION@">prot-scriber</requirement>
@@ -134,8 +134,7 @@
   <tests>
     <test>
       <param name="input_config_selector" value="basic"/>
-      <param name="seq_sim_table" value="8_Proteins_vs_Swissprot_blastp.txt" />
-      <param name="seq_sim_table" value="8_Proteins_vs_Trembl_blastp.txt" />
+      <param name="seq_sim_table" value="8_Proteins_vs_Swissprot_blastp.txt,8_Proteins_vs_Trembl_blastp.txt" />
       <output name="output" file="8_Proteins_prot-scriber.out" sort="true" />
     </test>
     <test>
@@ -307,4 +306,4 @@
 
     ]]>
   </help>
-</tool>
+</tool>
\ No newline at end of file
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diff -r c840a1c77a0a -r 1e9a43cbf524 test-data/8_Proteins_prot-scriber.out
--- a/test-data/8_Proteins_prot-scriber.out Tue May 10 13:18:05 2022 +0000
+++ b/test-data/8_Proteins_prot-scriber.out Wed Jun 15 08:37:03 2022 +0000
b
@@ -1,9 +1,12 @@
 Annotee-Identifier Human-Readable-Description
-Soltu.DM.02G020600.1 arath strubbelig receptor family
-Soltu.DM.S001650.1 germin member
+Soltu.DM.01G022510.1 sucrose nonfermenting protein x2
+Soltu.DM.02G020600.1 arath protein strubbelig receptor family
+Soltu.DM.10G003150.1 sh and domain containing protein
+Soltu.DM.04G035790.1 phosphatidylinositol phosphatidylcholine transfer protein sfh
+Soltu.DM.02G015700.1 lrr receptor serine threonine protein kinase
+Soltu.DM.03G026010.1 arm repeat protein interacting with
+Soltu.DM.07G016620.1 capch gdsl esterase lipase
+Soltu.DM.S001650.1 germin protein member
 Soltu.DM.03G011280.1 increased dna methylation
-Soltu.DM.02G015700.1 lrr receptor serine threonine kinase
-Soltu.DM.07G016620.1 gdsl esterase lipase
-Soltu.DM.04G035790.1 phosphatidylinositol phosphatidylcholine transfer sfh
-Soltu.DM.01G022510.1 5 amp activated kinase subunit gamma
-Soltu.DM.01G045390.1 hva
+Soltu.DM.01G045390.1 gosmu hva protein
+Soltu.DM.09G022410.3 unknown protein
b
diff -r c840a1c77a0a -r 1e9a43cbf524 test-data/8_Proteins_vs_Trembl_blastp.txt
--- a/test-data/8_Proteins_vs_Trembl_blastp.txt Tue May 10 13:18:05 2022 +0000
+++ b/test-data/8_Proteins_vs_Trembl_blastp.txt Wed Jun 15 08:37:03 2022 +0000
b
b'@@ -1,136 +1,259 @@\n-Soltu.DM.02G015700.1\tsp|Q1MX30|XA21_ORYSI\tsp|Q1MX30|XA21_ORYSI Receptor kinase-like protein Xa21 OS=Oryza sativa subsp. indica OX=39946 GN=XA21 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q2R2D5|XA21_ORYSJ\tsp|Q2R2D5|XA21_ORYSJ Receptor kinase-like protein Xa21 OS=Oryza sativa subsp. japonica OX=39947 GN=XA21 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|C0LGP4|Y3475_ARATH\tsp|C0LGP4|Y3475_ARATH Probable LRR receptor-like serine/threonine-protein kinase At3g47570 OS=Arabidopsis thaliana OX=3702 GN=At3g47570 PE=2 SV=1\n-Soltu.DM.02G015700.1\tsp|C0LGT6|EFR_ARATH\tsp|C0LGT6|EFR_ARATH LRR receptor-like serine/threonine-protein kinase EFR OS=Arabidopsis thaliana OX=3702 GN=EFR PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9SD62|Y3471_ARATH\tsp|Q9SD62|Y3471_ARATH Putative receptor-like protein kinase At3g47110 OS=Arabidopsis thaliana OX=3702 GN=At3g47110 PE=3 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9ZUI0|Y2241_ARATH\tsp|Q9ZUI0|Y2241_ARATH Putative leucine-rich repeat receptor-like serine/threonine-protein kinase At2g24130 OS=Arabidopsis thaliana OX=3702 GN=At2g24130 PE=3 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9FL28|FLS2_ARATH\tsp|Q9FL28|FLS2_ARATH LRR receptor-like serine/threonine-protein kinase FLS2 OS=Arabidopsis thaliana OX=3702 GN=FLS2 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9SJG2|Y2296_ARATH\tsp|Q9SJG2|Y2296_ARATH Probable receptor-like protein kinase At2g42960 OS=Arabidopsis thaliana OX=3702 GN=At2g42960 PE=3 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9LRP3|Y3174_ARATH\tsp|Q9LRP3|Y3174_ARATH Probable receptor-like protein kinase At3g17420 OS=Arabidopsis thaliana OX=3702 GN=At3g17420 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9LYN8|EMS1_ARATH\tsp|Q9LYN8|EMS1_ARATH Leucine-rich repeat receptor protein kinase EMS1 OS=Arabidopsis thaliana OX=3702 GN=EMS1 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q3EDL4|Y1154_ARATH\tsp|Q3EDL4|Y1154_ARATH Probable serine/threonine-protein kinase At1g01540 OS=Arabidopsis thaliana OX=3702 GN=At1g01540 PE=1 SV=2\n-Soltu.DM.02G015700.1\tsp|C0LGF4|FEI1_ARATH\tsp|C0LGF4|FEI1_ARATH LRR receptor-like serine/threonine-protein kinase FEI 1 OS=Arabidopsis thaliana OX=3702 GN=FEI1 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|C0LGQ5|GSO1_ARATH\tsp|C0LGQ5|GSO1_ARATH LRR receptor-like serine/threonine-protein kinase GSO1 OS=Arabidopsis thaliana OX=3702 GN=GSO1 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|C0LGJ1|Y1743_ARATH\tsp|C0LGJ1|Y1743_ARATH Probable LRR receptor-like serine/threonine-protein kinase At1g74360 OS=Arabidopsis thaliana OX=3702 GN=At1g74360 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9FZB1|Y5188_ARATH\tsp|Q9FZB1|Y5188_ARATH Probable LRR receptor-like serine/threonine-protein kinase At1g51880 OS=Arabidopsis thaliana OX=3702 GN=At1g51880 PE=2 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9SHI2|Y1723_ARATH\tsp|Q9SHI2|Y1723_ARATH Leucine-rich repeat receptor-like serine/threonine-protein kinase At1g17230 OS=Arabidopsis thaliana OX=3702 GN=At1g17230 PE=1 SV=2\n-Soltu.DM.02G015700.1\tsp|Q9C7S5|PSYR1_ARATH\tsp|Q9C7S5|PSYR1_ARATH Tyrosine-sulfated glycopeptide receptor 1 OS=Arabidopsis thaliana OX=3702 GN=PSY1R PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|O49564|CRK27_ARATH\tsp|O49564|CRK27_ARATH Cysteine-rich receptor-like protein kinase 27 OS=Arabidopsis thaliana OX=3702 GN=CRK27 PE=3 SV=2\n-Soltu.DM.02G015700.1\tsp|Q0JA29|FLS2_ORYSJ\tsp|Q0JA29|FLS2_ORYSJ LRR receptor-like serine/threonine-protein kinase FLS2 OS=Oryza sativa subsp. japonica OX=39947 GN=FLS2 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q7G768|BRL2_ORYSJ\tsp|Q7G768|BRL2_ORYSJ Brassinosteroid LRR receptor kinase BRL2 OS=Oryza sativa subsp. japonica OX=39947 GN=BRL2 PE=2 SV=1\n-Soltu.DM.02G015700.1\tsp|Q9FGL5|CEPR1_ARATH\tsp|Q9FGL5|CEPR1_ARATH Receptor protein-tyrosine kinase CEPR1 OS=Arabidopsis thaliana OX=3702 GN=CEPR1 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|Q8LPB4|PSKR1_DAUCA\tsp|Q8LPB4|PSKR1_DAUCA Phytosulfokine receptor 1 OS=Daucus carota OX=4039 GN=PSKR PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|C0LGL9|FEI2_ARATH\tsp|C0LGL9|FEI2_ARATH LRR receptor-like serine/threonine-protein kinase FEI 2 OS=Arabidopsis thaliana OX=3702 GN=FEI2 PE=1 SV=1\n-Soltu.DM.02G015700.1\tsp|O22476|BRI1_ARATH\tsp|O22476|B'..b'ining protein OS=Solanum lycopersicum OX=4081 GN=101245221 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A2G3D6Y8|A0A2G3D6Y8_CAPCH\ttr|A0A2G3D6Y8|A0A2G3D6Y8_CAPCH Protein STRUBBELIG-RECEPTOR FAMILY 6 OS=Capsicum chinense OX=80379 GN=BC332_05091 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A1U8FLP8|A0A1U8FLP8_CAPAN\ttr|A0A1U8FLP8|A0A1U8FLP8_CAPAN Protein STRUBBELIG-RECEPTOR FAMILY 6 OS=Capsicum annuum OX=4072 GN=T459_05929 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A2G3A987|A0A2G3A987_CAPAN\ttr|A0A2G3A987|A0A2G3A987_CAPAN protein STRUBBELIG-RECEPTOR FAMILY 8 OS=Capsicum annuum OX=4072 GN=LOC107859625 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A2G2XFW3|A0A2G2XFW3_CAPBA\ttr|A0A2G2XFW3|A0A2G2XFW3_CAPBA Protein STRUBBELIG-RECEPTOR FAMILY 6 OS=Capsicum baccatum OX=33114 GN=CQW23_04835 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A1S4BSJ0|A0A1S4BSJ0_TOBAC\ttr|A0A1S4BSJ0|A0A1S4BSJ0_TOBAC protein STRUBBELIG-RECEPTOR FAMILY 8-like OS=Nicotiana tabacum OX=4097 GN=LOC107811361 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A1J6JF67|A0A1J6JF67_NICAT\ttr|A0A1J6JF67|A0A1J6JF67_NICAT Protein strubbelig-receptor family 8 OS=Nicotiana attenuata OX=49451 GN=SRF8_0 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A1U7WKD8|A0A1U7WKD8_NICSY\ttr|A0A1U7WKD8|A0A1U7WKD8_NICSY protein STRUBBELIG-RECEPTOR FAMILY 8 OS=Nicotiana sylvestris OX=4096 GN=LOC104227250 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A1S4CZH4|A0A1S4CZH4_TOBAC\ttr|A0A1S4CZH4|A0A1S4CZH4_TOBAC protein STRUBBELIG-RECEPTOR FAMILY 8-like OS=Nicotiana tabacum OX=4097 GN=LOC107824173 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A0V0ITN0|A0A0V0ITN0_SOLCH\ttr|A0A0V0ITN0|A0A0V0ITN0_SOLCH Protein kinase domain-containing protein OS=Solanum chacoense OX=4108 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A5J4ZCC6|A0A5J4ZCC6_9ASTE\ttr|A0A5J4ZCC6|A0A5J4ZCC6_9ASTE Protein kinase domain-containing protein OS=Nyssa sinensis OX=561372 GN=F0562_018840 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A5B6ZXR9|A0A5B6ZXR9_DAVIN\ttr|A0A5B6ZXR9|A0A5B6ZXR9_DAVIN Protein kinase domain-containing protein OS=Davidia involucrata OX=16924 GN=Din_017667 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A5B6ZW63|A0A5B6ZW63_DAVIN\ttr|A0A5B6ZW63|A0A5B6ZW63_DAVIN Protein kinase domain-containing protein OS=Davidia involucrata OX=16924 GN=Din_017666 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A7J7GUH1|A0A7J7GUH1_CAMSI\ttr|A0A7J7GUH1|A0A7J7GUH1_CAMSI Uncharacterized protein OS=Camellia sinensis OX=4442 GN=HYC85_017668 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A022R4X9|A0A022R4X9_ERYGU\ttr|A0A022R4X9|A0A022R4X9_ERYGU Protein kinase domain-containing protein OS=Erythranthe guttata OX=4155 GN=MIMGU_mgv1a002066mg PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A6P6U720|A0A6P6U720_COFAR\ttr|A0A6P6U720|A0A6P6U720_COFAR protein STRUBBELIG-RECEPTOR FAMILY 8 OS=Coffea arabica OX=13443 GN=LOC113707685 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A068U7E7|A0A068U7E7_COFCA\ttr|A0A068U7E7|A0A068U7E7_COFCA Protein kinase domain-containing protein OS=Coffea canephora OX=49390 GN=GSCOC_T00017834001 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A4D8Z793|A0A4D8Z793_SALSN\ttr|A0A4D8Z793|A0A4D8Z793_SALSN Protein kinase domain-containing protein OS=Salvia splendens OX=180675 GN=Saspl_041412 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A2G9HZP3|A0A2G9HZP3_9LAMI\ttr|A0A2G9HZP3|A0A2G9HZP3_9LAMI Serine/threonine protein kinase OS=Handroanthus impetiginosus OX=429701 GN=CDL12_04291 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A6S7PCE6|A0A6S7PCE6_LACSI\ttr|A0A6S7PCE6|A0A6S7PCE6_LACSI Protein kinase domain-containing protein OS=Lactuca saligna OX=75948 GN=LSAL_LOCUS31584 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A2R6Q9V6|A0A2R6Q9V6_ACTCC\ttr|A0A2R6Q9V6|A0A2R6Q9V6_ACTCC Protein STRUBBELIG-RECEPTOR FAMILY 8 like OS=Actinidia chinensis var. chinensis OX=1590841 GN=CEY00_Acc20539 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A6P3ZVD2|A0A6P3ZVD2_ZIZJJ\ttr|A0A6P3ZVD2|A0A6P3ZVD2_ZIZJJ protein STRUBBELIG-RECEPTOR FAMILY 8 OS=Ziziphus jujuba OX=326968 GN=LOC107420943 PE=4 SV=1\n+Soltu.DM.02G020600.1\ttr|A0A2I4DMC4|A0A2I4DMC4_JUGRE\ttr|A0A2I4DMC4|A0A2I4DMC4_JUGRE protein STRUBBELIG-RECEPTOR FAMILY 8-like OS=Juglans regia OX=51240 GN=LOC108981544 PE=4 SV=2\n'