Mercurial > repos > iuc > scanpy_inspect
comparison inspect.xml @ 8:9d33775ec67d draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scanpy/ commit 7b8af82cb8a3438d2a6535986e357527e5c6efec"
| author | iuc |
|---|---|
| date | Tue, 16 Mar 2021 12:59:22 +0000 |
| parents | 6c145a6868cc |
| children | c5d3684f7c4c |
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| 7:6c145a6868cc | 8:9d33775ec67d |
|---|---|
| 230 #end if | 230 #end if |
| 231 inplace=True) | 231 inplace=True) |
| 232 | 232 |
| 233 #else if $method.method == "pp.log1p" | 233 #else if $method.method == "pp.log1p" |
| 234 sc.pp.log1p( | 234 sc.pp.log1p( |
| 235 data=adata, | 235 adata, |
| 236 copy=False) | 236 copy=False) |
| 237 | 237 |
| 238 #else if $method.method == "pp.scale" | 238 #else if $method.method == "pp.scale" |
| 239 sc.pp.scale( | 239 sc.pp.scale( |
| 240 data=adata, | 240 adata, |
| 241 zero_center=$method.zero_center, | 241 zero_center=$method.zero_center, |
| 242 #if $method.max_value | 242 #if $method.max_value |
| 243 max_value=$method.max_value, | 243 max_value=$method.max_value, |
| 244 #end if | 244 #end if |
| 245 copy=False) | 245 copy=False) |
| 246 | 246 |
| 247 #else if $method.method == "pp.sqrt" | 247 #else if $method.method == "pp.sqrt" |
| 248 sc.pp.sqrt( | 248 sc.pp.sqrt( |
| 249 data=adata, | 249 adata, |
| 250 copy=False) | 250 copy=False) |
| 251 #end if | 251 #end if |
| 252 | 252 |
| 253 @CMD_anndata_write_outputs@ | 253 @CMD_anndata_write_outputs@ |
| 254 ]]></configfile> | 254 ]]></configfile> |
| 705 <has_text_matching expression="multi_class='auto'"/> | 705 <has_text_matching expression="multi_class='auto'"/> |
| 706 <has_text_matching expression="tol=0.0001"/> | 706 <has_text_matching expression="tol=0.0001"/> |
| 707 <has_text_matching expression="C=1.0"/> | 707 <has_text_matching expression="C=1.0"/> |
| 708 </assert_contents> | 708 </assert_contents> |
| 709 </output> | 709 </output> |
| 710 <output name="anndata_out" file="tl.rank_genes_groups.newton-cg.pbmc68k_reduced.h5ad" ftype="h5ad" compare="sim_size"> | 710 <output name="anndata_out" file="tl.rank_genes_groups.newton-cg.pbmc68k_reduced.h5ad" ftype="h5ad" compare="sim_size" delta="1000000" delta_frac="0.15"> |
| 711 <assert_contents> | 711 <assert_contents> |
| 712 <has_h5_keys keys="X, obs, obsm, raw.X, raw.var, uns, var" /> | 712 <has_h5_keys keys="X, obs, obsm, raw/X, raw/var, uns, var" /> |
| 713 </assert_contents> | 713 </assert_contents> |
| 714 </output> | 714 </output> |
| 715 </test> | 715 </test> |
| 716 <test> | 716 <test> |
| 717 <!-- test 7 --> | 717 <!-- test 7 --> |
| 760 <has_text_matching expression="intercept_scaling=1.0"/> | 760 <has_text_matching expression="intercept_scaling=1.0"/> |
| 761 <has_text_matching expression="tol=0.0001"/> | 761 <has_text_matching expression="tol=0.0001"/> |
| 762 <has_text_matching expression="C=1.0"/> | 762 <has_text_matching expression="C=1.0"/> |
| 763 </assert_contents> | 763 </assert_contents> |
| 764 </output> | 764 </output> |
| 765 <output name="anndata_out" file="tl.rank_genes_groups.liblinear.krumsiek11.h5ad" ftype="h5ad" compare="sim_size"> | 765 <output name="anndata_out" file="tl.rank_genes_groups.liblinear.krumsiek11.h5ad" ftype="h5ad" compare="sim_size" delta="1000000" delta_frac="0.15"> |
| 766 <assert_contents> | 766 <assert_contents> |
| 767 <has_h5_keys keys="X, obs, obsm, raw.X, raw.var, uns, var" /> | 767 <has_h5_keys keys="X, obs, obsm, raw/X, raw/var, uns, var" /> |
| 768 </assert_contents> | 768 </assert_contents> |
| 769 </output> | 769 </output> |
| 770 </test> | 770 </test> |
| 771 <!--<test> | 771 <!--<test> |
| 772 < test 9 > | 772 < test 9 > |