| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/gemini_stats/gemini_stats/0.20.1 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/gemini_stats/gemini_stats/0.18.1.1 |
| toolshed.g2.bx.psu.edu/repos/iuc/gemini_stats/gemini_stats/0.18.1.0 |
| gemini_stats |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| gemini | 0.20.1 | package |
| Additional information about this tool |
gemini stats
#if str($stats.type) == "gts-stats":
#set $multiline_sql_expr = $stats.variants.gt_filter
#set $cmdln_param = "--gt-filter"
#set $sql_expr = str($multiline_sql_expr).strip()
#if str($sql_expr):
#set $sql_expr = $sql_expr.replace('\r\n', '\n')
#set $sql_expr = $sql_expr.replace('\r', '\n')
#set $sql_expr = $sql_expr.replace('\\\n', ' ')
$cmdln_param '$sql_expr'
#end if
#if str($stats.variants.constraint).strip():
#set $multiline_sql_expr = "select * from variants WHERE " + str($stats.variants.constraint)
#else:
#set $multiline_sql_expr = "select * from variants"
#end if
#set $cmdln_param = "--summarize"
#set $sql_expr = str($multiline_sql_expr).strip()
#if str($sql_expr):
#set $sql_expr = $sql_expr.replace('\r\n', '\n')
#set $sql_expr = $sql_expr.replace('\r', '\n')
#set $sql_expr = $sql_expr.replace('\\\n', ' ')
$cmdln_param '$sql_expr'
#end if
#else:
${stats.stats_option}
#end if
'$infile'
> '$outfile'
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
infile: gemini_load_result1.db stats|stats_option: --tstv-coding stats|type: tstv-stats |
name: value |
gemini_load_result1.db value |
| Test-2 |
infile: gemini_de_novo_input.db stats|variants|keep: all stats|type: gts-stats |
name: value |
gemini_de_novo_input.db value |