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test ncbi_datasets #29

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mvdbeek opened this issue Mar 14, 2022 · 8 comments
Closed

test ncbi_datasets #29

mvdbeek opened this issue Mar 14, 2022 · 8 comments

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@mvdbeek
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mvdbeek commented Mar 14, 2022 •
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@mvdbeek
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mvdbeek commented Mar 14, 2022

/run-tool-test tool_id=toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0

@mvdbeek
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mvdbeek commented Mar 14, 2022

Results (powered by Planemo)

Summary

State Count
Total 3
Passed 0
Error 0
Failure 3
Skipped 0
Failed s
  • ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test tool test #1)

    Problems:

    • Job in error state.. tool_id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0, exit_code: 255, stderr: �[33mWARNING:�[0m Could not lookup the current user's information: user: unknown userid 819800
�[31mFATAL:  �[0m Couldn't determine user account information: user: unknown userid 819800
.

    • Job in error state.. tool_id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0, exit_code: 255, stderr: �[33mWARNING:�[0m Could not lookup the current user's information: user: unknown userid 819800
�[31mFATAL:  �[0m Couldn't determine user account information: user: unknown userid 819800
.

    Command Line:

    • 

      • 

    

    Exit Code:
    

      

    • 

      255
      

      • 

    

    Standard Error:
    

      

    • 

      �[33mWARNING:�[0m Could not lookup the current user's information: user: unknown userid 819800
�[31mFATAL:  �[0m Couldn't determine user account information: user: unknown userid 819800

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 1, "download_by": "taxon", "taxon": "human"}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "21", "reference": "false", "released_before": "01/01/2018", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "false", "exclude_gff3": "false", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "true", "include_gbff": "false", "include_gtf": "false"}

      

      
uncompressed
"false"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test test against test.galaxyproject.org #2)
    

    Problems:
    

      

    • 

      Job in error state.. tool_id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0, exit_code: 127, stderr: /corral4/main/jobs/041/364/41364823/tool_script.sh: line 9: datasets: not found
.

      

      • 

    • 

      Job in error state.. tool_id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0, exit_code: 127, stderr: /corral4/main/jobs/041/364/41364823/tool_script.sh: line 9: datasets: not found
.

      

      • 

    • 

      Output collection 'sequence_report': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    • 

      Output collection 'genomic_gtf': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    • 

      Output collection 'genomic_cds': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    

    Command Line:
    

      

    • 

      

      • 

    

    Exit Code:
    

      

    • 

      127
      

      • 

    

    Standard Error:
    

      

    • 

      /corral4/main/jobs/041/364/41364823/tool_script.sh: line 9: datasets: not found

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 0, "download_by": "accession", "text_or_file": {"__current_case__": 0, "accession": "GCF_000013305.1 GCF_000007445.1", "text_or_file": "text"}}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "", "reference": "false", "released_before": "01/01/2007", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "true", "exclude_gff3": "false", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "true", "include_gbff": "false", "include_gtf": "true"}

      

      
uncompressed
"true"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test Test Prokka 1.14.6+galaxy1 #3)
    

    Problems:
    

      

    • 

      Job in error state.. tool_id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0, exit_code: 127, stderr: /corral4/main/jobs/041/364/41364831/tool_script.sh: line 9: datasets: not found
.

      

      • 

    • 

      Job in error state.. tool_id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0, exit_code: 127, stderr: /corral4/main/jobs/041/364/41364831/tool_script.sh: line 9: datasets: not found
.

      

      • 

    • 

      Output collection 'sequence_report': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    • 

      Output collection 'genomic_gff': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    • 

      Output collection 'genomic_gbff': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    

    Command Line:
    

      

    • 

      

      • 

    

    Exit Code:
    

      

    • 

      127
      

      • 

    

    Standard Error:
    

      

    • 

      /corral4/main/jobs/041/364/41364831/tool_script.sh: line 9: datasets: not found

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 0, "download_by": "accession", "text_or_file": {"__current_case__": 1, "inputfile": {"values": [{"id": 94418836, "src": "hda"}]}, "text_or_file": "file"}}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "", "reference": "false", "released_before": "01/02/2007", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "false", "exclude_gff3": "true", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "false", "include_gbff": "true", "include_gtf": "false"}

      

      
uncompressed
"true"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 




      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
      



  

  @jennaj





  


    

      

  

    

        
    
    

  


      
          
  
      
            Copy link

  

      
    

  


  

      

  
    Collaborator


      

  


  

    

      

      
            jennaj
  

      

      

      commented


        Jun 24, 2022


      
    


  





      


        


  
    

      
          
/run-tool-test tool_id=toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0

      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
      



  

  @mvdbeek





  


    

      

  

    

        
    
    

  


      
          
  
      
            Copy link

  

      
    

  


  

      

  
    Owner


      

  Author


  


  

    

      

      
            mvdbeek
  

      

      

      commented


        Jun 24, 2022


      
    


  





      


        


  
    

      
          
Results (powered by Planemo)


Summary



  

  

  

  

  

  








State
Count






Total
3




Passed
1




Error
0




Failure
2




Skipped
0






Failed s

    

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test test against test.galaxyproject.org #2)
    

    Problems:
    

      

    • 

      Collection element GCF_000013305.1 of collection sequence_report:  different than expected, difference (using contains):
( /tmp/tmpkzyg8fycgenome.2.GCF_000013305.1.seq.rpt.jsonl v. /tmp/tmpd_ba23hcgenome.2.GCF_000013305.1.seq.rpt.jsonl )
Failed to find '{"assemblyUnit":"GCF_000013315.1","assignedMoleculeLocationType":"Chromosome","chrName":"ANONYMOUS","gcCount":"2495020","genbankAccession":"CP000247.1","length":4938920,"refseqAccession":"NC_008253.1","sortOrder":1}' in history data. (lines_diff=0).

      

      • 

    • 

      Collection element GCF_000013305.1 of collection genomic_gtf:  different than expected, difference (using contains):
( /tmp/tmp8mnjdrfigenome.2.GCF_000013305.1.genomic.gtf v. /tmp/tmpczrns2h1genome.2.GCF_000013305.1.genomic.gtf )
Failed to find '#!annotation-date 05/06/2021 17:31:48' in history data. (lines_diff=0).

      

      • 

    

    Command Line:
    

      

    • 

      

      • 

    

    Exit Code:
    

      

    • 

      0
      

      • 

    

    Standard Error:
    

      

    • 

      New version of client (13.26.0) available at https://ftp.ncbi.nlm.nih.gov/pub/datasets/command-line/LATEST/linux-amd64/datasets
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length

      

      • 

    

    Standard Output:
    

      

    • 

      Downloading: ncbi_dataset.zip    59B 567kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.28kB 182kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.28kB 182kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.28kB 182kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.28kB 182kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    65.5kB 487kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    131kB 742kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    131kB 742kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    131kB 742kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    328kB 1.51MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    328kB 1.51MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    328kB 1.51MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    688kB 2.63MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    1.18MB 3.93MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    1.18MB 3.93MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    1.56MB 4.56MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    1.56MB 4.56MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    1.56MB 4.56MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    1.56MB 3.59MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    3.41MB 2.92MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    3.77MB 2.9MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    3.77MB 2.83MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    3.77MB 2.83MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    3.77MB 2.83MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    4.03MB 2.86MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    4.13MB 2.83MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    4.3MB 2.93MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    4.42MB 2.92MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    4.56MB 2.99MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    4.82MB 3.07MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    5.08MB 3.18MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.26MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.04MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.04MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.24MB 3.04MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.41MB 3.06MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    5.5MB 3.1MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    5.75MB 3.18MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    5.96MB 3.1MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    6.01MB 3.13MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    6.13MB 3.15MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    6.46MB 3.28MB/s
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�[1A�[2KDownloading: ncbi_dataset.zip    7.06MB 3.51MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.62MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.62MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.62MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.62MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.62MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.62MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.47MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.34MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB 3.34MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB done
�[1A�[2KDownloading: ncbi_dataset.zip    7.34MB done
Archive:  ncbi_dataset.zip
  inflating: README.md
  inflating: ncbi_dataset/data/assembly_data_report.jsonl
  inflating: ncbi_dataset/data/GCF_000007445.1/GCF_000007445.1_ASM744v1_genomic.fna
  inflating: ncbi_dataset/data/GCF_000007445.1/genomic.gtf
  inflating: ncbi_dataset/data/GCF_000007445.1/cds_from_genomic.fna
  inflating: ncbi_dataset/data/GCF_000013305.1/GCF_000013305.1_ASM1330v1_genomic.fna
  inflating: ncbi_dataset/data/GCF_000013305.1/genomic.gtf
  inflating: ncbi_dataset/data/GCF_000013305.1/cds_from_genomic.fna
  inflating: ncbi_dataset/data/GCF_000007445.1/sequence_report.jsonl
  inflating: ncbi_dataset/data/GCF_000013305.1/sequence_report.jsonl
  inflating: ncbi_dataset/data/dataset_catalog.json

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 0, "download_by": "accession", "text_or_file": {"__current_case__": 0, "accession": "GCF_000013305.1 GCF_000007445.1", "text_or_file": "text"}}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "", "reference": "false", "released_before": "01/01/2007", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "true", "exclude_gff3": "false", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "true", "include_gbff": "false", "include_gtf": "true"}

      

      
uncompressed
"true"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test Test Prokka 1.14.6+galaxy1 #3)
    

    Problems:
    

      

    • 

      Collection element GCF_000013305.1 of collection sequence_report:  different than expected, difference (using contains):
( /tmp/tmp4a2v16mcgenome.2.GCF_000013305.1.seq.rpt.jsonl v. /tmp/tmpmxlxz25qgenome.2.GCF_000013305.1.seq.rpt.jsonl )
Failed to find '{"assemblyUnit":"GCF_000013315.1","assignedMoleculeLocationType":"Chromosome","chrName":"ANONYMOUS","gcCount":"2495020","genbankAccession":"CP000247.1","length":4938920,"refseqAccession":"NC_008253.1","sortOrder":1}' in history data. (lines_diff=0).

      

      • 

    • 

      Collection element GCF_000013305.1 of collection genomic_gff:  different than expected, difference (using contains):
( /tmp/tmpgd0kj67ngenome.3.GCF_000013305.1.genomic.gff v. /tmp/tmpn5lfxntggenome.3.GCF_000013305.1.genomic.gff )
Failed to find '#!annotation-date 05/06/2021 17:31:48' in history data. (lines_diff=0).

      

      • 

    • 

      Collection element GCF_000013305.1 of collection genomic_gbff:  different than expected, difference (using contains):
( /tmp/tmpugkqzba3genome.3.GCF_000013305.1.genomic.gbff v. /tmp/tmppsz39_8lgenome.3.GCF_000013305.1.genomic.gbff )
Failed to find 'LOCUS       NC_008253            4938920 bp    DNA     circular CON 13-MAY-2021' in history data. (lines_diff=0).

      

      • 

    

    Command Line:
    

      

    • 

      

      • 

    

    Exit Code:
    

      

    • 

      0
      

      • 

    

    Standard Error:
    

      

    • 

      New version of client (13.26.0) available at https://ftp.ncbi.nlm.nih.gov/pub/datasets/command-line/LATEST/linux-amd64/datasets
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length
unzip: bad length

      

      • 

    

    Standard Output:
    

      

    • 

      Downloading: ncbi_dataset.zip    2.16kB 6.76MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.16kB 6.76MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.25kB 84.5kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    2.25kB 84.5kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    32.8kB 486kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    32.8kB 486kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    65.5kB 612kB/s
�[1A�[2KDownloading: ncbi_dataset.zip    197kB 1.31MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    262kB 1.58MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    393kB 2.04MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    1.47MB 5.27MB/s
�[1A�[2KDownloading: ncbi_dataset.zip    8.31MB done
�[1A�[2KDownloading: ncbi_dataset.zip    8.31MB done
�[1A�[2KDownloading: ncbi_dataset.zip    8.31MB done
Archive:  ncbi_dataset.zip
  inflating: README.md
  inflating: ncbi_dataset/data/assembly_data_report.jsonl
  inflating: ncbi_dataset/data/GCF_000007445.1/genomic.gff
  inflating: ncbi_dataset/data/GCF_000007445.1/genomic.gbff
  inflating: ncbi_dataset/data/GCF_000013305.1/genomic.gff
  inflating: ncbi_dataset/data/GCF_000013305.1/genomic.gbff
  inflating: ncbi_dataset/data/GCF_000007445.1/sequence_report.jsonl
  inflating: ncbi_dataset/data/GCF_000013305.1/sequence_report.jsonl
  inflating: ncbi_dataset/data/dataset_catalog.json

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 0, "download_by": "accession", "text_or_file": {"__current_case__": 1, "inputfile": {"values": [{"id": 99483623, "src": "hda"}]}, "text_or_file": "file"}}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "", "reference": "false", "released_before": "01/02/2007", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "false", "exclude_gff3": "true", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "false", "include_gbff": "true", "include_gtf": "false"}

      

      
uncompressed
"true"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 





Passed s

    

  • 

    ✅ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test tool test #1)
    

    Command Line:
    

      

    • 

      

      • 

    

    Exit Code:
    

      

    • 

      0
      

      • 

    

    Standard Error:
    

      

    • 

      New version of client (13.26.0) available at https://ftp.ncbi.nlm.nih.gov/pub/datasets/command-line/LATEST/linux-amd64/datasets

      

      • 

    

    Standard Output:
    

      

    • 

      Collecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    852B 916kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    946B 2.49kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    946B 2.49kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33kB 76kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33.1kB 58.2kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33.1kB 58.2kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33.1kB 58.2kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    33.1kB 58.2kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    65.5kB 101kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    164kB 237kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    164kB 237kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    164kB 237kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    295kB 403kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    328kB 447kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    328kB 447kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    360kB 477kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    557kB 721kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    721kB 913kB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    820kB 1.01MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    983kB 1.16MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.08MB 1.28MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.08MB 1.28MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.34MB 1.52MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.34MB 1.52MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.41MB 1.55MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.61MB 1.75MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.8MB 1.91MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.87MB 1.98MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    1.9MB 1.96MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.13MB 2.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.39MB 2.37MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.39MB 2.37MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.42MB 2.31MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.65MB 2.51MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.65MB 2.51MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.65MB 2.51MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.92MB 2.56MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.92MB 2.56MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.92MB 2.56MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    2.92MB 2.56MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.18MB 2.61MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.44MB 2.66MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.44MB 2.66MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.7MB 2.7MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.71MB 2.53MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.97MB 2.69MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    3.97MB 2.69MB
..
aset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
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Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.26MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
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Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
Downloading: ncbi_dataset.zip    95.9MB 1.18MB/s
�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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�[1A�[2K�[1A�[2KCollecting 139 genome accessions [================================================] 100% 139/139
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Downloading: ncbi_dataset.zip    95.9MB done
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Downloading: ncbi_dataset.zip    95.9MB done

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 1, "download_by": "taxon", "taxon": "human"}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "21", "reference": "false", "released_before": "01/01/2018", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "false", "exclude_gff3": "false", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "true", "include_gbff": "false", "include_gtf": "false"}

      

      
uncompressed
"false"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 




      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
      



  

  @jennaj





  


    

      

  

    

        
    
    

  


      
          
  
      
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            jennaj
  

      

      

      commented


        Jun 27, 2022


      
    


  





      


        


  
    

      
          
/run-tool-test tool_id=toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.4.0

      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
      



  

  @mvdbeek





  


    

      

  

    

        
    
    

  


      
          
  
      
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            mvdbeek
  

      

      

      commented


        Jun 27, 2022


      
    


  





      


        


  
    

      
          
Any reason you're running this against an old tool ? The output is changing often, and hence the test data. You might want to run against toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome/13.24.1+galaxy1

      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
      



  

  @mvdbeek





  


    

      

  

    

        
    
    

  


      
          
  
      
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            mvdbeek
  

      

      

      commented


        Jun 27, 2022


      
    


  





      


        


  
    

      
          
(And the previous output looks fine to me if you know that the databases change)

      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
      



  

  @mvdbeek





  


    

      

  

    

        
    
    

  


      
          
  
      
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            mvdbeek
  

      

      

      commented


        Jun 27, 2022


      
    


  





      


        


  
    

      
          
Results (powered by Planemo)


Summary



  

  

  

  

  

  








State
Count






Total
3




Passed
0




Error
1




Failure
2




Skipped
0






Errored s

    

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test Test Prokka 1.14.6+galaxy1 #3)
    

    Execution Problem:
    

      

    • 

      Input staging problem: Expecting value: line 1 column 1 (char 0)

      

      • 

    

    

    • 





Failed s

    

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test tool test #1)
    

    Problems:
    

      

    • 

      Expecting value: line 1 column 1 (char 0)

      

      • 

    

    

    • 

  • 

    ❌ toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome (Test test against test.galaxyproject.org #2)
    

    Problems:
    

      

    • 

      Expecting value: line 1 column 1 (char 0)

      

      • 

    • 

      Expecting value: line 1 column 1 (char 0)

      

      • 

    • 

      Expecting value: line 1 column 1 (char 0)

      

      • 

    • 

      Output collection 'genomic_gtf': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    • 

      Output collection 'genomic_cds': failed to find identifier 'GCF_000013305.1' in the tool generated elements []

      

      • 

    

    Command Line:
    

      

    • 

      

      • 

    

    Job Parameters:
    

      

    • 

      


      
Job parameter
Parameter value

      
      


      
query
{"subcommand": {"__current_case__": 0, "download_by": "accession", "text_or_file": {"__current_case__": 0, "accession": "GCF_000013305.1 GCF_000007445.1", "text_or_file": "text"}}}

      

      
filters
{"annotated": "false", "assembly_level": null, "assembly_source": null, "chromosomes": "", "reference": "false", "released_before": "01/01/2007", "released_since": null, "search": []}

      

      
file_choices
{"exclude_genomic_cds": "true", "exclude_gff3": "false", "exclude_protein": "false", "exclude_rna": "false", "exclude_seq": "true", "include_gbff": "false", "include_gtf": "true"}

      

      
uncompressed
"true"

      

      
chromInfo
"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"

      

      
dbkey
"?"

      

      
__input_ext
"input"

      
      

      

      • 

    

    

    • 




      		
    

  





        


            

            

              
            

        

      


      

            
  

    
  
    
    

  

  



    












      

  
            

    

      
    

    


      

          @mvdbeek
mvdbeek




            closed this as completed


      Oct 21, 2022

    

  


    


  

  

    
  


  

      

    @mvdbeek
mvdbeek



    mentioned this issue
    
      Nov 10, 2022
    





  


  

      
  
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          @mvdbeek 
        
          @jennaj