diff --git a/cpt_find_spanins/cpt-macros.xml b/cpt_find_spanins/cpt-macros.xml deleted file mode 100755 index 6c6f39d..0000000 --- a/cpt_find_spanins/cpt-macros.xml +++ /dev/null @@ -1,114 +0,0 @@ - - - - python - biopython - requests - - - - - - - - 10.1371/journal.pcbi.1008214 - @unpublished{galaxyTools, - author = {E. Mijalis, H. Rasche}, - title = {CPT Galaxy Tools}, - year = {2013-2017}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - - 10.1371/journal.pcbi.1008214 - - @unpublished{galaxyTools, - author = {E. Mijalis, H. Rasche}, - title = {CPT Galaxy Tools}, - year = {2013-2017}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - - - - 10.1371/journal.pcbi.1008214 - - @unpublished{galaxyTools, - author = {C. Ross}, - title = {CPT Galaxy Tools}, - year = {2020-}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - - - - 10.1371/journal.pcbi.1008214 - - @unpublished{galaxyTools, - author = {E. Mijalis, H. Rasche}, - title = {CPT Galaxy Tools}, - year = {2013-2017}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - @unpublished{galaxyTools, - author = {A. Criscione}, - title = {CPT Galaxy Tools}, - year = {2019-2021}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - - - - 10.1371/journal.pcbi.1008214 - - @unpublished{galaxyTools, - author = {A. Criscione}, - title = {CPT Galaxy Tools}, - year = {2019-2021}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - - - - 10.1371/journal.pcbi.1008214 - - @unpublished{galaxyTools, - author = {C. Maughmer}, - title = {CPT Galaxy Tools}, - year = {2017-2020}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - - - - @unpublished{galaxyTools, - author = {C. Maughmer}, - title = {CPT Galaxy Tools}, - year = {2017-2020}, - note = {https://github.com/tamu-cpt/galaxy-tools/} - } - - - - diff --git a/cpt_find_spanins/findSpanin.xml b/cpt_find_spanins/findSpanin.xml index cc10412..683f2f8 100755 --- a/cpt_find_spanins/findSpanin.xml +++ b/cpt_find_spanins/findSpanin.xml @@ -2,7 +2,6 @@ With the outputs from the ISP and OSP candidate tools, cull the list down to candidate pairs macros.xml - python diff --git a/cpt_find_spanins/macros.xml b/cpt_find_spanins/macros.xml deleted file mode 100755 index 6affa27..0000000 --- a/cpt_find_spanins/macros.xml +++ /dev/null @@ -1,58 +0,0 @@ - - - - regex - python - biopython - cpt_gffparser - - - - - $blast_tsv - - - - - - $blast_xml - - - - - - - - - - - - - - - - - - - - $gff3_data - - - genomeref.fa - - - ln -s $genome_fasta genomeref.fa; - - - genomeref.fa - - - - - - $sequences - - - - - diff --git a/cpt_find_spanins/macros.xml b/cpt_find_spanins/macros.xml new file mode 120000 index 0000000..0c6ff6c --- /dev/null +++ b/cpt_find_spanins/macros.xml @@ -0,0 +1 @@ +../macros.xml \ No newline at end of file