npm - @jbrowse/plugin-alignments - Versions diffs - 2.4.1 → 2.5.0 - Mend

@jbrowse/plugin-alignments 2.4.1 → 2.5.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (193) hide show

package/dist/BamAdapter/BamAdapter.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"BamAdapter.js","sourceRoot":"","sources":["../../src/BamAdapter/BamAdapter.ts"],"names":[],"mappings":";;;;;AAAA,mCAAmC;AACnC,yEAGgD;AAEhD,6CAA2E;AAC3E,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AAExC,SAAS;AACT,sFAA6D;AAC7D,+BAAqC;AAOrC,MAAqB,UAAW,SAAQ,oCAAsB;IAS5D,iEAAiE;IACjE,oEAAoE;IAC1D,KAAK,CAAC,YAAY;QAC1B,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QACpD,MAAM,SAAS,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QACtD,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,GAAG,GAAG,SAAS,KAAK,KAAK,CAAA;QAC/B,MAAM,GAAG,GAAG,IAAI,aAAO,CAAC;YACtB,aAAa,EAAE,IAAA,iBAAY,EAAC,WAAW,EAAE,EAAE,CAAC;YAC5C,aAAa,EAAE,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAC3D,aAAa,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAE5D,8DAA8D;YAC9D,gEAAgE;YAChE,mEAAmE;YACnE,cAAc,EAAE,QAAQ;YACxB,cAAc,EAAE,QAAQ;YACxB,eAAe,EAAE,QAAQ;SAC1B,CAAC,CAAA;QAEF,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;QACrD,IAAI,aAAa,IAAI,IAAI,CAAC,aAAa,EAAE;YACvC,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,aAAa,CAAC,aAAa,CAAC,CAAA;YAC/D,OAAO;gBACL,GAAG;gBACH,eAAe,EAAE,WAAqC;aACvD,CAAA;SACF;aAAM;YACL,OAAO,EAAE,GAAG,EAAE,CAAA;SACf;IACH,CAAC;IAES,KAAK,CAAC,SAAS;QACvB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,GAAG,CAAC,aAAa,CAAC,IAAI,CAAC,CAAA;IAChC,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,IAAI,CAAC,SAAS,GAAG,MAAM,IAAA,mBAAY,EACjC,mBAAmB,EACnB,cAAc,EACd,KAAK,IAAI,EAAE;YACT,MAAM,SAAS,GAAG,MAAM,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;YAE3C,oDAAoD;YACpD,+CAA+C;YAC/C,MAAM,QAAQ,GAAa,EAAE,CAAA;YAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;YAC3C,SAAS;iBACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;iBAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;gBACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;oBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;wBACrB,uBAAuB;wBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;wBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;wBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;qBAC1B;gBACH,CAAC,CAAC,CAAA;YACJ,CAAC,CAAC,CAAA;YAEJ,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,CAAA;QAC/B,CAAC,CACF,CAAA;QACD,OAAO,IAAI,CAAC,SAAS,CAAA;IACvB,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,IAAkB;QAC5B,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;YAChB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC1C,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;gBACvB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,MAAM,CAAA;IACpB,CAAC;IAED,KAAK,CAAC,WAAW,CAAC,IAAkB;QAClC,MAAM,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QAC3C,OAAO,QAAQ,CAAA;IACjB,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,OAAe,EAAE,KAAa,EAAE,GAAW;QAChE,MAAM,EAAE,eAAe,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAClD,MAAM,WAAW,GAAG,eAAe,CAAA;QACnC,IAAI,CAAC,WAAW,EAAE;YAChB,OAAO,SAAS,CAAA;SACjB;QACD,IAAI,CAAC,OAAO,EAAE;YACZ,OAAO,SAAS,CAAA;SACjB;QAED,MAAM,QAAQ,GAAG,WAAW,CAAC,WAAW,CAAC;YACvC,OAAO;YACP,KAAK;YACL,GAAG;YACH,YAAY,EAAE,EAAE;SACjB,CAAC,CAAA;QAEF,MAAM,SAAS,GAAG,MAAM,IAAA,qBAAc,EAAC,QAAQ,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,CAAA;QAEhE,IAAI,QAAQ,GAAG,EAAE,CAAA;QACjB,SAAS;aACN,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC;aAC/C,OAAO,CAAC,KAAK,CAAC,EAAE;YACf,MAAM,UAAU,GAAG,KAAK,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;YACrC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;YACjC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,KAAK,GAAG,UAAU,EAAE,CAAC,CAAC,CAAA;YACjD,MAAM,OAAO,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,UAAU,EAAE,QAAQ,GAAG,UAAU,CAAC,CAAA;YACjE,MAAM,UAAU,GAAG,OAAO,GAAG,SAAS,CAAA;YACtC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,KAAK,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;YAC1D,QAAQ,IAAI,QAAQ,CAAC,KAAK,CAAC,SAAS,EAAE,SAAS,GAAG,UAAU,CAAC,CAAA;QAC/D,CAAC,CAAC,CAAA;QAEJ,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,GAAG,KAAK,EAAE;YACnC,MAAM,IAAI,KAAK,CACb,mCAAmC,OAAO,IAAI,CAC5C,KAAK,GAAG,CAAC,CACV,CAAC,cAAc,EAAE,IAAI,GAAG,CAAC,cAAc,EAAE,aAAa,QAAQ,CAAC,MAAM,CAAC,cAAc,EAAE,oCAAoC,CACzH,GAAG,GAAG,KAAK,CACZ,CAAC,cAAc,EAAE,EAAE,CACrB,CAAA;SACF;QACD,OAAO,QAAQ,CAAA;IACjB,CAAC;IAED,WAAW,CACT,MAA6C,EAC7C,IAOC;QAED,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,eAAe,EAAE,GAAG,MAAM,CAAA;QACvD,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAClE,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YACtC,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YACtB,cAAc,CAAC,wBAAwB,CAAC,CAAA;YACxC,MAAM,OAAO,GAAG,MAAM,GAAG,CAAC,kBAAkB,CAAC,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;YAEvE,MAAM,EACJ,WAAW,GAAG,CAAC,EACf,WAAW,GAAG,CAAC,EACf,SAAS,EACT,QAAQ,GACT,GAAG,QAAQ,IAAI,EAAE,CAAA;YAElB,KAAK,MAAM,MAAM,IAAI,OAAO,EAAE;gBAC5B,IAAI,GAAuB,CAAA;gBAC3B,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE;oBACrB,GAAG,GAAG,MAAM,IAAI,CAAC,QAAQ,CACvB,eAAe,IAAI,OAAO,EAC1B,MAAM,CAAC,GAAG,CAAC,OAAO,CAAC,EACnB,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,CAClB,CAAA;iBACF;gBAED,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,CAAA;gBAC1B,IACE,CAAC,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,KAAK,WAAW,IAAI,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,CAAC,EAClE;oBACA,SAAQ;iBACT;gBAED,IAAI,SAAS,EAAE;oBACb,MAAM,GAAG,GAAG,MAAM,CAAC,GAAG,CAAC,SAAS,CAAC,GAAG,CAAC,CAAA;oBACrC,IAAI,CAAC,CAAC,GAAG,KAAK,GAAG,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,KAAK,CAAC,EAAE;wBAChE,SAAQ;qBACT;iBACF;gBAED,IAAI,QAAQ,IAAI,MAAM,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,QAAQ,EAAE;oBAC/C,SAAQ;iBACT;gBAED,QAAQ,CAAC,IAAI,CAAC,IAAI,gCAAsB,CAAC,MAAM,EAAE,IAAI,EAAE,GAAG,CAAC,CAAC,CAAA;aAC7D;YACD,cAAc,CAAC,EAAE,CAAC,CAAA;YAClB,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,MAAM,CAAC,CAAA;IACZ,CAAC;IAED,KAAK,CAAC,~~oBAAoB~~,~~CAAC~~,OAAiB,~~EAAE~~,IAAkB;~~QAC9D~~,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,uDAAuD;QACvD,mBAAmB;QACnB,IAAI,GAAG,CAAC,KAAK,CAAC,UAAU,KAAK,GAAG,EAAE;YAChC,MAAM,KAAK,GAAG,MAAM,IAAA,sBAAe,EAAC,OAAO,EAAE,GAAG,CAAC,CAAA;YACjD,MAAM,cAAc,GAAG,IAAI,CAAC,OAAO,CAAC,gBAAgB,CAAC,CAAA;YACrD,OAAO,EAAE,KAAK,EAAE,cAAc,EAAE,CAAA;SACjC;aAAM;YACL,OAAO,KAAK,CAAC,~~oBAAoB~~,CAAC,OAAO,EAAE,IAAI,CAAC,CAAA;~~SACjD~~;IACH,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;IAExC,2DAA2D;IAC3D,WAAW,CAAC,KAAa;;QACvB,OAAO,MAAA,IAAI,CAAC,SAAS,0CAAE,QAAQ,CAAC,KAAK,CAAC,CAAA;IACxC,CAAC;CACF;~~AApOD~~,~~6BAoOC~~"}
1	+ {"version":3,"file":"BamAdapter.js","sourceRoot":"","sources":["../../src/BamAdapter/BamAdapter.ts"],"names":[],"mappings":";;;;;AAAA,mCAAmC;AACnC,yEAGgD;AAEhD,6CAA2E;AAC3E,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AAExC,SAAS;AACT,sFAA6D;AAC7D,+BAAqC;AAOrC,MAAqB,UAAW,SAAQ,oCAAsB;IAS5D,iEAAiE;IACjE,oEAAoE;IAC1D,KAAK,CAAC,YAAY;QAC1B,MAAM,WAAW,GAAG,IAAI,CAAC,OAAO,CAAC,aAAa,CAAC,CAAA;QAC/C,MAAM,QAAQ,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,UAAU,CAAC,CAAC,CAAA;QACpD,MAAM,SAAS,GAAG,IAAI,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,WAAW,CAAC,CAAC,CAAA;QACtD,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAC7B,MAAM,GAAG,GAAG,SAAS,KAAK,KAAK,CAAA;QAC/B,MAAM,GAAG,GAAG,IAAI,aAAO,CAAC;YACtB,aAAa,EAAE,IAAA,iBAAY,EAAC,WAAW,EAAE,EAAE,CAAC;YAC5C,aAAa,EAAE,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAC3D,aAAa,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,IAAA,iBAAY,EAAC,QAAQ,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS;YAE5D,8DAA8D;YAC9D,gEAAgE;YAChE,mEAAmE;YACnE,cAAc,EAAE,QAAQ;YACxB,cAAc,EAAE,QAAQ;YACxB,eAAe,EAAE,QAAQ;SAC1B,CAAC,CAAA;QAEF,MAAM,aAAa,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;QACrD,IAAI,aAAa,IAAI,IAAI,CAAC,aAAa,EAAE;YACvC,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,aAAa,CAAC,aAAa,CAAC,CAAA;YAC/D,OAAO;gBACL,GAAG;gBACH,eAAe,EAAE,WAAqC;aACvD,CAAA;SACF;aAAM;YACL,OAAO,EAAE,GAAG,EAAE,CAAA;SACf;IACH,CAAC;IAES,KAAK,CAAC,SAAS;QACvB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,GAAG,CAAC,aAAa,CAAC,IAAI,CAAC,CAAA;IAChC,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,IAAI,CAAC,SAAS,GAAG,MAAM,IAAA,mBAAY,EACjC,mBAAmB,EACnB,cAAc,EACd,KAAK,IAAI,EAAE;YACT,MAAM,SAAS,GAAG,MAAM,GAAG,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;YAE3C,oDAAoD;YACpD,+CAA+C;YAC/C,MAAM,QAAQ,GAAa,EAAE,CAAA;YAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;YAC3C,SAAS;iBACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;iBAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;gBACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;oBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;wBACrB,uBAAuB;wBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;wBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;wBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;qBAC1B;gBACH,CAAC,CAAC,CAAA;YACJ,CAAC,CAAC,CAAA;YAEJ,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,CAAA;QAC/B,CAAC,CACF,CAAA;QACD,OAAO,IAAI,CAAC,SAAS,CAAA;IACvB,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,IAAkB;QAC5B,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;YAChB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC1C,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;gBACvB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,MAAM,CAAA;IACpB,CAAC;IAED,KAAK,CAAC,WAAW,CAAC,IAAkB;QAClC,MAAM,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QAC3C,OAAO,QAAQ,CAAA;IACjB,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,OAAe,EAAE,KAAa,EAAE,GAAW;QAChE,MAAM,EAAE,eAAe,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAClD,MAAM,WAAW,GAAG,eAAe,CAAA;QACnC,IAAI,CAAC,WAAW,EAAE;YAChB,OAAO,SAAS,CAAA;SACjB;QACD,IAAI,CAAC,OAAO,EAAE;YACZ,OAAO,SAAS,CAAA;SACjB;QAED,MAAM,QAAQ,GAAG,WAAW,CAAC,WAAW,CAAC;YACvC,OAAO;YACP,KAAK;YACL,GAAG;YACH,YAAY,EAAE,EAAE;SACjB,CAAC,CAAA;QAEF,MAAM,SAAS,GAAG,MAAM,IAAA,qBAAc,EAAC,QAAQ,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,CAAA;QAEhE,IAAI,QAAQ,GAAG,EAAE,CAAA;QACjB,SAAS;aACN,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC;aAC/C,OAAO,CAAC,KAAK,CAAC,EAAE;YACf,MAAM,UAAU,GAAG,KAAK,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;YACrC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;YACjC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,KAAK,GAAG,UAAU,EAAE,CAAC,CAAC,CAAA;YACjD,MAAM,OAAO,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,UAAU,EAAE,QAAQ,GAAG,UAAU,CAAC,CAAA;YACjE,MAAM,UAAU,GAAG,OAAO,GAAG,SAAS,CAAA;YACtC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,KAAK,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;YAC1D,QAAQ,IAAI,QAAQ,CAAC,KAAK,CAAC,SAAS,EAAE,SAAS,GAAG,UAAU,CAAC,CAAA;QAC/D,CAAC,CAAC,CAAA;QAEJ,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,GAAG,KAAK,EAAE;YACnC,MAAM,IAAI,KAAK,CACb,mCAAmC,OAAO,IAAI,CAC5C,KAAK,GAAG,CAAC,CACV,CAAC,cAAc,EAAE,IAAI,GAAG,CAAC,cAAc,EAAE,aAAa,QAAQ,CAAC,MAAM,CAAC,cAAc,EAAE,oCAAoC,CACzH,GAAG,GAAG,KAAK,CACZ,CAAC,cAAc,EAAE,EAAE,CACrB,CAAA;SACF;QACD,OAAO,QAAQ,CAAA;IACjB,CAAC;IAED,WAAW,CACT,MAA6C,EAC7C,IAOC;QAED,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,eAAe,EAAE,GAAG,MAAM,CAAA;QACvD,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAClE,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YACtC,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YACtB,cAAc,CAAC,wBAAwB,CAAC,CAAA;YACxC,MAAM,OAAO,GAAG,MAAM,GAAG,CAAC,kBAAkB,CAAC,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;YAEvE,MAAM,EACJ,WAAW,GAAG,CAAC,EACf,WAAW,GAAG,CAAC,EACf,SAAS,EACT,QAAQ,GACT,GAAG,QAAQ,IAAI,EAAE,CAAA;YAElB,KAAK,MAAM,MAAM,IAAI,OAAO,EAAE;gBAC5B,IAAI,GAAuB,CAAA;gBAC3B,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE;oBACrB,GAAG,GAAG,MAAM,IAAI,CAAC,QAAQ,CACvB,eAAe,IAAI,OAAO,EAC1B,MAAM,CAAC,GAAG,CAAC,OAAO,CAAC,EACnB,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,CAClB,CAAA;iBACF;gBAED,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,CAAA;gBAC1B,IACE,CAAC,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,KAAK,WAAW,IAAI,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,CAAC,EAClE;oBACA,SAAQ;iBACT;gBAED,IAAI,SAAS,EAAE;oBACb,MAAM,GAAG,GAAG,MAAM,CAAC,GAAG,CAAC,SAAS,CAAC,GAAG,CAAC,CAAA;oBACrC,IAAI,CAAC,CAAC,GAAG,KAAK,GAAG,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,KAAK,CAAC,EAAE;wBAChE,SAAQ;qBACT;iBACF;gBAED,IAAI,QAAQ,IAAI,MAAM,CAAC,GAAG,CAAC,MAAM,CAAC,KAAK,QAAQ,EAAE;oBAC/C,SAAQ;iBACT;gBAED,QAAQ,CAAC,IAAI,CAAC,IAAI,gCAAsB,CAAC,MAAM,EAAE,IAAI,EAAE,GAAG,CAAC,CAAC,CAAA;aAC7D;YACD,cAAc,CAAC,EAAE,CAAC,CAAA;YAClB,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,MAAM,CAAC,CAAA;IACZ,CAAC;IAED,KAAK,CAAC,iCAAiC,CACrC,OAAiB,EACjB,IAAkB;QAElB,MAAM,EAAE,GAAG,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,uDAAuD;QACvD,mBAAmB;QACnB,IAAI,GAAG,CAAC,KAAK,CAAC,UAAU,KAAK,GAAG,EAAE;YAChC,MAAM,KAAK,GAAG,MAAM,IAAA,sBAAe,EAAC,OAAO,EAAE,GAAG,CAAC,CAAA;YACjD,MAAM,cAAc,GAAG,IAAI,CAAC,OAAO,CAAC,gBAAgB,CAAC,CAAA;YACrD,OAAO,EAAE,KAAK,EAAE,cAAc,EAAE,CAAA;SACjC;aAAM;YACL,OAAO,KAAK,CAAC,iCAAiC,CAAC,OAAO,EAAE,IAAI,CAAC,CAAA;SAC9D;IACH,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;IAExC,2DAA2D;IAC3D,WAAW,CAAC,KAAa;;QACvB,OAAO,MAAA,IAAI,CAAC,SAAS,0CAAE,QAAQ,CAAC,KAAK,CAAC,CAAA;IACxC,CAAC;CACF;AAvOD,6BAuOC"}

package/dist/BamAdapter/configSchema.d.ts CHANGED Viewed

@@ -1,2 +1,51 @@
-declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    bamLocation: {
+        type: string;
+        defaultValue: {
+            uri: string;
+            locationType: string;
+        };
+    };
+    index: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        /**
+         * #slot index.indexType
+         */
+        indexType: {
+            model: import("mobx-state-tree").ISimpleType<string>;
+            type: string;
+            defaultValue: string;
+        };
+        /**
+         * #slot index.location
+         */
+        location: {
+            type: string;
+            defaultValue: {
+                uri: string;
+                locationType: string;
+            };
+        };
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    /**
+     * #slot
+     */
+    fetchSizeLimit: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot
+     * generally refers to the reference genome assembly's sequence adapter
+     * currently needs to be manually added
+     */
+    sequenceAdapter: {
+        type: string;
+        description: string;
+        defaultValue: null;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
 export default configSchema;

package/dist/CramAdapter/CramAdapter.d.ts CHANGED Viewed

@@ -45,7 +45,7 @@ export default class CramAdapter extends BaseFeatureDataAdapter {
     }): import("rxjs").Observable<Feature>;
     freeResources(): void;
     cramRecordToFeature(record: CramRecord): CramSlightlyLazyFeature;
-    estimateRegionsStats(regions: Region[], opts?: BaseOptions): Promise<{
+    getMultiRegionFeatureDensityStats(regions: Region[], opts?: BaseOptions): Promise<{
         bytes: number;
         fetchSizeLimit: any;
     }>;

package/dist/CramAdapter/CramAdapter.js CHANGED Viewed

@@ -200,7 +200,7 @@ class CramAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
         return new CramSlightlyLazyFeature_1.default(record, this);
     }
     // we return the configured fetchSizeLimit, and the bytes for the region
-    async estimateRegionsStats(regions, opts) {
+    async getMultiRegionFeatureDensityStats(regions, opts) {
         const bytes = await this.bytesForRegions(regions, opts);
         const fetchSizeLimit = this.getConf('fetchSizeLimit');
         return {

package/dist/CramAdapter/CramAdapter.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"CramAdapter.js","sourceRoot":"","sources":["../../src/CramAdapter/CramAdapter.ts"],"names":[],"mappings":";;;;;AAAA,qCAAmE;AACnE,yEAIgD;AAChD,6CAAsE;AACtE,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AACxC,+BAAqC;AACrC,wFAA+D;AAe/D,MAAqB,WAAY,SAAQ,oCAAsB;IAA/D;;QACE,cAAS,GAAW,EAAE,CAAA;QAgBtB,gFAAgF;QACxE,2BAAsB,GAAa,EAAE,CAAA;~~IAwQ~~/C,CAAC;~~IAtQQ~~,KAAK,CAAC,YAAY;QACvB,MAAM,YAAY,GAAG,IAAI,CAAC,OAAO,CAAC,cAAc,CAAC,CAAA;QACjD,MAAM,YAAY,GAAG,IAAI,CAAC,OAAO,CAAC,cAAc,CAAC,CAAA;QACjD,IAAI,CAAC,YAAY,EAAE;YACjB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,IAAI,CAAC,YAAY,EAAE;YACjB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAE7B,MAAM,IAAI,GAAG,IAAI,sBAAe,CAAC;YAC/B,cAAc,EAAE,IAAA,iBAAY,EAAC,YAAY,EAAE,EAAE,CAAC;YAC9C,KAAK,EAAE,IAAI,gBAAS,CAAC,EAAE,UAAU,EAAE,IAAA,iBAAY,EAAC,YAAY,EAAE,EAAE,CAAC,EAAE,CAAC;YACpE,QAAQ,EAAE,CAAC,GAAG,IAAI,EAAE,EAAE,CAAC,IAAI,CAAC,QAAQ,CAAC,GAAG,IAAI,CAAC;YAC7C,gBAAgB,EAAE,KAAK;YACvB,cAAc,EAAE,SAAW,EAAE,kDAAkD;SAChF,CAAC,CAAA;QAEF,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE;YACvB,MAAM,IAAI,KAAK,CAAC,0BAA0B,CAAC,CAAA;SAC5C;QAED,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;QAC/C,MAAM,UAAU,GAAG,MAAM,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;QAEpD,OAAO;YACL,IAAI;YACJ,eAAe,EAAE,UAAU,CAAC,WAAkC;SAC/D,CAAA;IACH,CAAC;IAEM,KAAK,CAAC,SAAS;QACpB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACvC,OAAO,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE,CAAA;IAClC,CAAC;IAEO,KAAK,CAAC,QAAQ,CACpB,KAAa,EACb,KAAa,EACb,GAAW;QAEX,KAAK,IAAI,CAAC,CAAA,CAAC,2CAA2C;QAEtD,MAAM,EAAE,eAAe,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAClD,MAAM,OAAO,GAAG,IAAI,CAAC,mBAAmB,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,WAAW,CAAC,KAAK,CAAC,CAAA;QAC1E,IAAI,CAAC,OAAO,EAAE;YACZ,MAAM,IAAI,KAAK,CAAC,SAAS,CAAC,CAAA;SAC3B;QAED,MAAM,SAAS,GAAG,MAAM,IAAA,qBAAc,EACpC,eAAe;aACZ,WAAW,CAAC;YACX,OAAO;YACP,KAAK;YACL,GAAG;YACH,YAAY,EAAE,EAAE;SACjB,CAAC;aACD,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CACnB,CAAA;QAED,MAAM,QAAQ,GAAG,SAAS;aACvB,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC;aAC/C,GAAG,CAAC,KAAK,CAAC,EAAE;YACX,MAAM,UAAU,GAAG,KAAK,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;YACrC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;YACjC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,KAAK,GAAG,UAAU,EAAE,CAAC,CAAC,CAAA;YACjD,MAAM,OAAO,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,UAAU,EAAE,QAAQ,GAAG,UAAU,CAAC,CAAA;YACjE,MAAM,UAAU,GAAG,OAAO,GAAG,SAAS,CAAA;YACtC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,KAAK,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;YAC1D,OAAO,QAAQ,CAAC,KAAK,CAAC,SAAS,EAAE,SAAS,GAAG,UAAU,CAAC,CAAA;QAC1D,CAAC,CAAC;aACD,IAAI,CAAC,EAAE,CAAC,CAAA;QAEX,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,GAAG,KAAK,EAAE;YACnC,MAAM,IAAI,KAAK,CACb,mCAAmC,OAAO,IAAI,CAC5C,KAAK,GAAG,CAAC,CACV,CAAC,cAAc,EAAE,IAAI,GAAG,CAAC,cAAc,EAAE,aAAa,QAAQ,CAAC,MAAM,CAAC,cAAc,EAAE,oCAAoC,CACzH,GAAG,GAAG,KAAK,CACZ,CAAC,cAAc,EAAE,EAAE,CACrB,CAAA;SACF;QACD,OAAO,QAAQ,CAAA;IACjB,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACnC,cAAc,CAAC,mBAAmB,CAAC,CAAA;QACnC,MAAM,EAAE,IAAI,EAAE,GAAG,IAAI,CAAA;QACrB,MAAM,SAAS,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,CAAA;QAEhD,oDAAoD;QACpD,2CAA2C;QAC3C,MAAM,QAAQ,GAAa,EAAE,CAAA;QAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;QAC3C,SAAS;aACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;aAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;YACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;gBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;oBACrB,uBAAuB;oBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;oBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;oBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;iBAC1B;YACH,CAAC,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEJ,MAAM,UAAU,GAAG,SAAS;aACzB,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;aAC3B,GAAG,CAAC,MAAM,CAAC,EAAE,WAAC,OAAA,MAAA,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,GAAG,KAAK,IAAI,CAAC,0CAAE,KAAK,CAAA,EAAA,CAAC,CAAA;QAEpE,MAAM,IAAI,GAAG,EAAE,QAAQ,EAAE,QAAQ,EAAE,UAAU,EAAE,CAAA;QAC/C,cAAc,CAAC,EAAE,CAAC,CAAA;QAClB,IAAI,CAAC,SAAS,GAAG,IAAI,CAAA;QACrB,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,GAAG,IAAI,EAAE,CAAA;IACrC,CAAC;IAEO,KAAK,CAAC,KAAK,CAAC,IAAkB;QACpC,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;YAChB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC1C,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;gBACvB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,MAAM,CAAA;IACpB,CAAC;IAED,KAAK,CAAC,WAAW,CAAC,IAAkB;QAClC,MAAM,EAAE,SAAS,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QAC5C,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE;YACvB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,OAAO,SAAS,CAAC,QAAQ,CAAA;IAC3B,CAAC;IAED,mEAAmE;IACnE,gEAAgE;IAChE,WAAW,CAAC,OAAe;QACzB,IAAI,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE;YAC3B,OAAO,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,OAAO,CAAC,CAAA;SACxC;QACD,IAAI,IAAI,CAAC,cAAc,EAAE;YACvB,OAAO,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;SAC5C;QACD,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,mEAAmE;IACnE,gEAAgE;IAChE,WAAW,CAAC,KAAa;;QACvB,OAAO,CAAA,MAAA,IAAI,CAAC,SAAS,CAAC,QAAQ,0CAAG,KAAK,CAAC,MAAI,MAAA,IAAI,CAAC,cAAc,0CAAG,KAAK,CAAC,CAAA,CAAA;IACzE,CAAC;IAED,mBAAmB,CAAC,KAAa;QAC/B,OAAO,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,CAAA;IAC3C,CAAC;IAED,WAAW,CACT,MAA6C,EAC7C,IAEC;QAED,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAClE,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,eAAe,EAAE,GAAG,MAAM,CAAA;QAEvD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YAEvC,MAAM,KAAK,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YACvC,IAAI,KAAK,KAAK,SAAS,EAAE;gBACvB,OAAO,CAAC,IAAI,CAAC,iBAAiB,EAAE,OAAO,CAAC,CAAA;gBACxC,QAAQ,CAAC,QAAQ,EAAE,CAAA;gBACnB,OAAM;aACP;YAED,IAAI,eAAe,EAAE;gBACnB,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,GAAG,eAAe,CAAA;aACrD;YACD,cAAc,CAAC,wBAAwB,CAAC,CAAA;YACxC,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,kBAAkB,CAAC,KAAK,EAAE,KAAK,EAAE,GAAG,CAAC,CAAA;YAChE,IAAA,uBAAgB,EAAC,MAAM,CAAC,CAAA;YACxB,MAAM,EACJ,WAAW,GAAG,CAAC,EACf,WAAW,GAAG,CAAC,EACf,SAAS,EACT,QAAQ,GACT,GAAG,QAAQ,IAAI,EAAE,CAAA;YAElB,IAAI,QAAQ,GAAG,OAAO,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE;gBACrC,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,CAAA;gBAC1B,OAAO,CAAC,KAAK,GAAG,WAAW,CAAC,KAAK,WAAW,IAAI,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,CAAA;YACxE,CAAC,CAAC,CAAA;YAEF,IAAI,SAAS,EAAE;gBACb,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE;oBAClC,mBAAmB;oBACnB,MAAM,GAAG,GAAG,MAAM,CAAC,SAAS,CAAC,GAAG,CAAC,CAAA;oBACjC,OAAO,GAAG,KAAK,GAAG,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,KAAK,CAAA;gBAClE,CAAC,CAAC,CAAA;aACH;YAED,IAAI,QAAQ,EAAE;gBACZ,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,QAAQ,KAAK,QAAQ,CAAC,CAAA;aACnE;YAED,QAAQ,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE;gBACxB,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,mBAAmB,CAAC,MAAM,CAAC,CAAC,CAAA;YACjD,CAAC,CAAC,CAAA;YACF,cAAc,CAAC,EAAE,CAAC,CAAA;YAClB,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,MAAM,CAAC,CAAA;IACZ,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;IAExC,mBAAmB,CAAC,MAAkB;QACpC,OAAO,IAAI,iCAAuB,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;IAClD,CAAC;IAED,wEAAwE;IACxE,KAAK,CAAC,~~oBAAoB~~,~~CAAC~~,OAAiB,~~EAAE~~,IAAkB;~~QAC9D~~,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,eAAe,CAAC,OAAO,EAAE,IAAI,CAAC,CAAA;QACvD,MAAM,cAAc,GAAG,IAAI,CAAC,OAAO,CAAC,gBAAgB,CAAC,CAAA;QACrD,OAAO;YACL,KAAK;YACL,cAAc;SACf,CAAA;IACH,CAAC;IAED;;;;OAIG;IACK,KAAK,CAAC,eAAe,CAAC,OAAiB,EAAE,KAAmB;QAClE,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACvC,MAAM,YAAY,GAAG,MAAM,OAAO,CAAC,GAAG,CACpC,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE;YACnB,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,GAAG,MAAM,CAAA;YACtC,MAAM,KAAK,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YACvC,OAAO,KAAK,KAAK,SAAS;gBACxB,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,kBAAkB,CAAC,KAAK,EAAE,KAAK,EAAE,GAAG,CAAC;gBAClD,CAAC,CAAC,CAAC,EAAE,UAAU,EAAE,CAAC,EAAE,CAAC,CAAA;QACzB,CAAC,CAAC,CACH,CAAA;QAED,OAAO,YAAY,CAAC,IAAI,EAAE,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,UAAU,EAAE,CAAC,CAAC,CAAA;IAClE,CAAC;CACF;~~AA1RD~~,~~8BA0RC~~"}
1	+ {"version":3,"file":"CramAdapter.js","sourceRoot":"","sources":["../../src/CramAdapter/CramAdapter.ts"],"names":[],"mappings":";;;;;AAAA,qCAAmE;AACnE,yEAIgD;AAChD,6CAAsE;AACtE,8CAAoD;AACpD,kDAA0D;AAC1D,8CAAwC;AACxC,+BAAqC;AACrC,wFAA+D;AAe/D,MAAqB,WAAY,SAAQ,oCAAsB;IAA/D;;QACE,cAAS,GAAW,EAAE,CAAA;QAgBtB,gFAAgF;QACxE,2BAAsB,GAAa,EAAE,CAAA;IA2Q/C,CAAC;IAzQQ,KAAK,CAAC,YAAY;QACvB,MAAM,YAAY,GAAG,IAAI,CAAC,OAAO,CAAC,cAAc,CAAC,CAAA;QACjD,MAAM,YAAY,GAAG,IAAI,CAAC,OAAO,CAAC,cAAc,CAAC,CAAA;QACjD,IAAI,CAAC,YAAY,EAAE;YACjB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,IAAI,CAAC,YAAY,EAAE;YACjB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,MAAM,EAAE,GAAG,IAAI,CAAC,aAAa,CAAA;QAE7B,MAAM,IAAI,GAAG,IAAI,sBAAe,CAAC;YAC/B,cAAc,EAAE,IAAA,iBAAY,EAAC,YAAY,EAAE,EAAE,CAAC;YAC9C,KAAK,EAAE,IAAI,gBAAS,CAAC,EAAE,UAAU,EAAE,IAAA,iBAAY,EAAC,YAAY,EAAE,EAAE,CAAC,EAAE,CAAC;YACpE,QAAQ,EAAE,CAAC,GAAG,IAAI,EAAE,EAAE,CAAC,IAAI,CAAC,QAAQ,CAAC,GAAG,IAAI,CAAC;YAC7C,gBAAgB,EAAE,KAAK;YACvB,cAAc,EAAE,SAAW,EAAE,kDAAkD;SAChF,CAAC,CAAA;QAEF,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE;YACvB,MAAM,IAAI,KAAK,CAAC,0BAA0B,CAAC,CAAA;SAC5C;QAED,MAAM,OAAO,GAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;QAC/C,MAAM,UAAU,GAAG,MAAM,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;QAEpD,OAAO;YACL,IAAI;YACJ,eAAe,EAAE,UAAU,CAAC,WAAkC;SAC/D,CAAA;IACH,CAAC;IAEM,KAAK,CAAC,SAAS;QACpB,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YACpB,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,YAAY,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC9C,IAAI,CAAC,UAAU,GAAG,SAAS,CAAA;gBAC3B,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,UAAU,CAAA;IACxB,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,IAAkB;QAChC,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACvC,OAAO,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE,CAAA;IAClC,CAAC;IAEO,KAAK,CAAC,QAAQ,CACpB,KAAa,EACb,KAAa,EACb,GAAW;QAEX,KAAK,IAAI,CAAC,CAAA,CAAC,2CAA2C;QAEtD,MAAM,EAAE,eAAe,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAClD,MAAM,OAAO,GAAG,IAAI,CAAC,mBAAmB,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,WAAW,CAAC,KAAK,CAAC,CAAA;QAC1E,IAAI,CAAC,OAAO,EAAE;YACZ,MAAM,IAAI,KAAK,CAAC,SAAS,CAAC,CAAA;SAC3B;QAED,MAAM,SAAS,GAAG,MAAM,IAAA,qBAAc,EACpC,eAAe;aACZ,WAAW,CAAC;YACX,OAAO;YACP,KAAK;YACL,GAAG;YACH,YAAY,EAAE,EAAE;SACjB,CAAC;aACD,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CACnB,CAAA;QAED,MAAM,QAAQ,GAAG,SAAS;aACvB,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC;aAC/C,GAAG,CAAC,KAAK,CAAC,EAAE;YACX,MAAM,UAAU,GAAG,KAAK,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;YACrC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;YACjC,MAAM,SAAS,GAAG,IAAI,CAAC,GAAG,CAAC,KAAK,GAAG,UAAU,EAAE,CAAC,CAAC,CAAA;YACjD,MAAM,OAAO,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,UAAU,EAAE,QAAQ,GAAG,UAAU,CAAC,CAAA;YACjE,MAAM,UAAU,GAAG,OAAO,GAAG,SAAS,CAAA;YACtC,MAAM,QAAQ,GAAG,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,KAAK,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;YAC1D,OAAO,QAAQ,CAAC,KAAK,CAAC,SAAS,EAAE,SAAS,GAAG,UAAU,CAAC,CAAA;QAC1D,CAAC,CAAC;aACD,IAAI,CAAC,EAAE,CAAC,CAAA;QAEX,IAAI,QAAQ,CAAC,MAAM,KAAK,GAAG,GAAG,KAAK,EAAE;YACnC,MAAM,IAAI,KAAK,CACb,mCAAmC,OAAO,IAAI,CAC5C,KAAK,GAAG,CAAC,CACV,CAAC,cAAc,EAAE,IAAI,GAAG,CAAC,cAAc,EAAE,aAAa,QAAQ,CAAC,MAAM,CAAC,cAAc,EAAE,oCAAoC,CACzH,GAAG,GAAG,KAAK,CACZ,CAAC,cAAc,EAAE,EAAE,CACrB,CAAA;SACF;QACD,OAAO,QAAQ,CAAA;IACjB,CAAC;IAEO,KAAK,CAAC,QAAQ,CAAC,IAAkB;QACvC,MAAM,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACnC,cAAc,CAAC,mBAAmB,CAAC,CAAA;QACnC,MAAM,EAAE,IAAI,EAAE,GAAG,IAAI,CAAA;QACrB,MAAM,SAAS,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,CAAA;QAEhD,oDAAoD;QACpD,2CAA2C;QAC3C,MAAM,QAAQ,GAAa,EAAE,CAAA;QAC7B,MAAM,QAAQ,GAA2B,EAAE,CAAA;QAC3C,SAAS;aACN,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;aAC3B,OAAO,CAAC,CAAC,MAAM,EAAE,KAAK,EAAE,EAAE;YACzB,MAAM,CAAC,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;gBACzB,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE;oBACrB,uBAAuB;oBACvB,MAAM,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;oBAC1B,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;oBACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;iBAC1B;YACH,CAAC,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEJ,MAAM,UAAU,GAAG,SAAS;aACzB,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC;aAC3B,GAAG,CAAC,MAAM,CAAC,EAAE,WAAC,OAAA,MAAA,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,GAAG,KAAK,IAAI,CAAC,0CAAE,KAAK,CAAA,EAAA,CAAC,CAAA;QAEpE,MAAM,IAAI,GAAG,EAAE,QAAQ,EAAE,QAAQ,EAAE,UAAU,EAAE,CAAA;QAC/C,cAAc,CAAC,EAAE,CAAC,CAAA;QAClB,IAAI,CAAC,SAAS,GAAG,IAAI,CAAA;QACrB,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,GAAG,IAAI,EAAE,CAAA;IACrC,CAAC;IAEO,KAAK,CAAC,KAAK,CAAC,IAAkB;QACpC,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;YAChB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC1C,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;gBACvB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,MAAM,CAAA;IACpB,CAAC;IAED,KAAK,CAAC,WAAW,CAAC,IAAkB;QAClC,MAAM,EAAE,SAAS,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QAC5C,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE;YACvB,MAAM,IAAI,KAAK,CAAC,+BAA+B,CAAC,CAAA;SACjD;QACD,OAAO,SAAS,CAAC,QAAQ,CAAA;IAC3B,CAAC;IAED,mEAAmE;IACnE,gEAAgE;IAChE,WAAW,CAAC,OAAe;QACzB,IAAI,IAAI,CAAC,SAAS,CAAC,QAAQ,EAAE;YAC3B,OAAO,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,OAAO,CAAC,CAAA;SACxC;QACD,IAAI,IAAI,CAAC,cAAc,EAAE;YACvB,OAAO,IAAI,CAAC,cAAc,CAAC,OAAO,CAAC,OAAO,CAAC,CAAA;SAC5C;QACD,OAAO,SAAS,CAAA;IAClB,CAAC;IAED,mEAAmE;IACnE,gEAAgE;IAChE,WAAW,CAAC,KAAa;;QACvB,OAAO,CAAA,MAAA,IAAI,CAAC,SAAS,CAAC,QAAQ,0CAAG,KAAK,CAAC,MAAI,MAAA,IAAI,CAAC,cAAc,0CAAG,KAAK,CAAC,CAAA,CAAA;IACzE,CAAC;IAED,mBAAmB,CAAC,KAAa;QAC/B,OAAO,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,CAAA;IAC3C,CAAC;IAED,WAAW,CACT,MAA6C,EAC7C,IAEC;QAED,MAAM,EAAE,MAAM,EAAE,QAAQ,EAAE,cAAc,GAAG,GAAG,EAAE,GAAE,CAAC,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAClE,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,eAAe,EAAE,GAAG,MAAM,CAAA;QAEvD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;YAChD,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YAEvC,MAAM,KAAK,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YACvC,IAAI,KAAK,KAAK,SAAS,EAAE;gBACvB,OAAO,CAAC,IAAI,CAAC,iBAAiB,EAAE,OAAO,CAAC,CAAA;gBACxC,QAAQ,CAAC,QAAQ,EAAE,CAAA;gBACnB,OAAM;aACP;YAED,IAAI,eAAe,EAAE;gBACnB,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,GAAG,eAAe,CAAA;aACrD;YACD,cAAc,CAAC,wBAAwB,CAAC,CAAA;YACxC,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,kBAAkB,CAAC,KAAK,EAAE,KAAK,EAAE,GAAG,CAAC,CAAA;YAChE,IAAA,uBAAgB,EAAC,MAAM,CAAC,CAAA;YACxB,MAAM,EACJ,WAAW,GAAG,CAAC,EACf,WAAW,GAAG,CAAC,EACf,SAAS,EACT,QAAQ,GACT,GAAG,QAAQ,IAAI,EAAE,CAAA;YAElB,IAAI,QAAQ,GAAG,OAAO,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE;gBACrC,MAAM,KAAK,GAAG,MAAM,CAAC,KAAK,CAAA;gBAC1B,OAAO,CAAC,KAAK,GAAG,WAAW,CAAC,KAAK,WAAW,IAAI,CAAC,CAAC,KAAK,GAAG,WAAW,CAAC,CAAA;YACxE,CAAC,CAAC,CAAA;YAEF,IAAI,SAAS,EAAE;gBACb,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE;oBAClC,mBAAmB;oBACnB,MAAM,GAAG,GAAG,MAAM,CAAC,SAAS,CAAC,GAAG,CAAC,CAAA;oBACjC,OAAO,GAAG,KAAK,GAAG,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,GAAG,KAAK,SAAS,CAAC,KAAK,CAAA;gBAClE,CAAC,CAAC,CAAA;aACH;YAED,IAAI,QAAQ,EAAE;gBACZ,QAAQ,GAAG,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,QAAQ,KAAK,QAAQ,CAAC,CAAA;aACnE;YAED,QAAQ,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE;gBACxB,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,mBAAmB,CAAC,MAAM,CAAC,CAAC,CAAA;YACjD,CAAC,CAAC,CAAA;YACF,cAAc,CAAC,EAAE,CAAC,CAAA;YAClB,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,EAAE,MAAM,CAAC,CAAA;IACZ,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;IAExC,mBAAmB,CAAC,MAAkB;QACpC,OAAO,IAAI,iCAAuB,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;IAClD,CAAC;IAED,wEAAwE;IACxE,KAAK,CAAC,iCAAiC,CACrC,OAAiB,EACjB,IAAkB;QAElB,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,eAAe,CAAC,OAAO,EAAE,IAAI,CAAC,CAAA;QACvD,MAAM,cAAc,GAAG,IAAI,CAAC,OAAO,CAAC,gBAAgB,CAAC,CAAA;QACrD,OAAO;YACL,KAAK;YACL,cAAc;SACf,CAAA;IACH,CAAC;IAED;;;;OAIG;IACK,KAAK,CAAC,eAAe,CAAC,OAAiB,EAAE,KAAmB;QAClE,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACvC,MAAM,YAAY,GAAG,MAAM,OAAO,CAAC,GAAG,CACpC,OAAO,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE;YACnB,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,GAAG,MAAM,CAAA;YACtC,MAAM,KAAK,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YACvC,OAAO,KAAK,KAAK,SAAS;gBACxB,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,kBAAkB,CAAC,KAAK,EAAE,KAAK,EAAE,GAAG,CAAC;gBAClD,CAAC,CAAC,CAAC,EAAE,UAAU,EAAE,CAAC,EAAE,CAAC,CAAA;QACzB,CAAC,CAAC,CACH,CAAA;QAED,OAAO,YAAY,CAAC,IAAI,EAAE,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,UAAU,EAAE,CAAC,CAAC,CAAA;IAClE,CAAC;CACF;AA7RD,8BA6RC"}

package/dist/CramAdapter/CramTestAdapters.js CHANGED Viewed

@@ -7,7 +7,7 @@ exports.SequenceAdapter = exports.FetchableSmallFasta = exports.parseSmallFasta
 const rxjs_1 = require("rxjs");
 const simpleFeature_1 = __importDefault(require("@jbrowse/core/util/simpleFeature"));
 const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-const configurationSchema_1 = require("@jbrowse/core/configuration/configurationSchema");
+const configuration_1 = require("@jbrowse/core/configuration");
 // setup for Cram Adapter Testing
 function parseSmallFasta(text) {
     return text
@@ -46,7 +46,7 @@ class FetchableSmallFasta {
 exports.FetchableSmallFasta = FetchableSmallFasta;
 class SequenceAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
     constructor(filehandle) {
-        super((0, configurationSchema_1.ConfigurationSchema)('empty', {}).create());
+        super((0, configuration_1.ConfigurationSchema)('empty', {}).create());
         this.refNames = [];
         this.fasta = new FetchableSmallFasta(filehandle);
     }

package/dist/CramAdapter/CramTestAdapters.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"CramTestAdapters.js","sourceRoot":"","sources":["../../src/CramAdapter/CramTestAdapters.ts"],"names":[],"mappings":";;;;;;AACA,+BAAiC;AACjC,qFAA4D;AAC5D,yEAAgF;AAChF~~,yFAAqF~~;~~AAErF~~,iCAAiC;AACjC,SAAgB,eAAe,CAAC,IAAY;IAC1C,OAAO,IAAI;SACR,KAAK,CAAC,GAAG,CAAC;SACV,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;SACzB,GAAG,CAAC,SAAS,CAAC,EAAE;QACf,MAAM,CAAC,OAAO,EAAE,GAAG,QAAQ,CAAC,GAAG,SAAS,CAAC,KAAK,CAAC,YAAY,CAAC,CAAA;QAC5D,MAAM,CAAC,EAAE,EAAE,GAAG,gBAAgB,CAAC,GAAG,OAAO,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QACpD,MAAM,WAAW,GAAG,gBAAgB,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;QAC9C,MAAM,QAAQ,GAAG,QAAQ,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC,OAAO,CAAC,KAAK,EAAE,EAAE,CAAC,CAAA;QACrD,OAAO,EAAE,EAAE,EAAE,WAAW,EAAE,QAAQ,EAAE,CAAA;IACtC,CAAC,CAAC,CAAA;AACN,CAAC;AAXD,0CAWC;AAID,MAAa,mBAAmB;IAG9B,YAAY,UAAsB;QAChC,IAAI,CAAC,IAAI,GAAG,UAAU,CAAC,QAAQ,EAAE,CAAC,IAAI,CAAC,MAAM,CAAC,EAAE;YAC9C,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAA;YACpC,OAAO,eAAe,CAAC,IAAI,CAAC,CAAA;QAC9B,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,EAAU,EAAE,KAAa,EAAE,GAAW;QAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,IAAI,CAAA;QAC5B,MAAM,KAAK,GAAG,IAAI,CAAC,EAAE,CAAC,CAAA;QACtB,MAAM,MAAM,GAAG,GAAG,GAAG,KAAK,GAAG,CAAC,CAAA;QAC9B,IAAI,CAAC,KAAK,EAAE;YACV,MAAM,IAAI,KAAK,CAAC,uBAAuB,EAAE,SAAS,CAAC,CAAA;SACpD;QACD,OAAO,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,KAAK,EAAE,KAAK,GAAG,MAAM,CAAC,CAAA;IACpD,CAAC;IAED,KAAK,CAAC,eAAe;QACnB,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,IAAI,CAAA;QAC5B,OAAO,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;IACpC,CAAC;CACF;AAxBD,kDAwBC;AAED,MAAa,eAAgB,SAAQ,oCAAsB;IAKzD,YAAY,UAAsB;QAChC,KAAK,CAAC,IAAA,~~yCAAmB~~,EAAC,OAAO,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAA;QAHlD,aAAQ,GAAa,EAAE,CAAA;QAIrB,IAAI,CAAC,KAAK,GAAG,IAAI,mBAAmB,CAAC,UAAU,CAAC,CAAA;IAClD,CAAC;IAED,KAAK,CAAC,WAAW;QACf,OAAO,IAAI,CAAC,QAAQ,CAAA;IACtB,CAAC;IAED,WAAW,CAAC,EACV,OAAO,EACP,KAAK,EACL,GAAG,GAKJ;QACC,OAAO,IAAI,iBAAU,CAAC,QAAQ,CAAC,EAAE;YAC/B,IAAI,CAAC,KAAK;iBACP,eAAe,EAAE;iBACjB,IAAI,CAAC,QAAQ,CAAC,EAAE;gBACf,IAAI,CAAC,QAAQ,GAAG,QAAQ,CAAA;YAC1B,CAAC,CAAC;iBACD,IAAI,CAAC,GAAG,EAAE,CACT,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,QAAQ,CAAC,OAAO,CAAC,OAAO,CAAC,EAAE,KAAK,EAAE,GAAG,CAAC,CAC7D;iBACA,IAAI,CAAC,GAAG,CAAC,EAAE;gBACV,QAAQ,CAAC,IAAI,CACX,IAAI,uBAAa,CAAC;oBAChB,QAAQ,EAAE,GAAG,OAAO,IAAI,KAAK,IAAI,GAAG,EAAE;oBACtC,GAAG,EAAE,GAAG;oBACR,KAAK;oBACL,GAAG;iBACJ,CAAC,CACH,CAAA;gBACD,QAAQ,CAAC,QAAQ,EAAE,CAAA;YACrB,CAAC,CAAC;iBACD,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;YAChC,OAAO,EAAE,WAAW,EAAE,GAAG,EAAE,GAAE,CAAC,EAAE,CAAA;QAClC,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC;AAjDD,0CAiDC"}
1	+ {"version":3,"file":"CramTestAdapters.js","sourceRoot":"","sources":["../../src/CramAdapter/CramTestAdapters.ts"],"names":[],"mappings":";;;;;;AACA,+BAAiC;AACjC,qFAA4D;AAC5D,yEAAgF;AAChF,+DAAiE;AAEjE,iCAAiC;AACjC,SAAgB,eAAe,CAAC,IAAY;IAC1C,OAAO,IAAI;SACR,KAAK,CAAC,GAAG,CAAC;SACV,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;SACzB,GAAG,CAAC,SAAS,CAAC,EAAE;QACf,MAAM,CAAC,OAAO,EAAE,GAAG,QAAQ,CAAC,GAAG,SAAS,CAAC,KAAK,CAAC,YAAY,CAAC,CAAA;QAC5D,MAAM,CAAC,EAAE,EAAE,GAAG,gBAAgB,CAAC,GAAG,OAAO,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;QACpD,MAAM,WAAW,GAAG,gBAAgB,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;QAC9C,MAAM,QAAQ,GAAG,QAAQ,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC,OAAO,CAAC,KAAK,EAAE,EAAE,CAAC,CAAA;QACrD,OAAO,EAAE,EAAE,EAAE,WAAW,EAAE,QAAQ,EAAE,CAAA;IACtC,CAAC,CAAC,CAAA;AACN,CAAC;AAXD,0CAWC;AAID,MAAa,mBAAmB;IAG9B,YAAY,UAAsB;QAChC,IAAI,CAAC,IAAI,GAAG,UAAU,CAAC,QAAQ,EAAE,CAAC,IAAI,CAAC,MAAM,CAAC,EAAE;YAC9C,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAA;YACpC,OAAO,eAAe,CAAC,IAAI,CAAC,CAAA;QAC9B,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,KAAK,CAAC,KAAK,CAAC,EAAU,EAAE,KAAa,EAAE,GAAW;QAChD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,IAAI,CAAA;QAC5B,MAAM,KAAK,GAAG,IAAI,CAAC,EAAE,CAAC,CAAA;QACtB,MAAM,MAAM,GAAG,GAAG,GAAG,KAAK,GAAG,CAAC,CAAA;QAC9B,IAAI,CAAC,KAAK,EAAE;YACV,MAAM,IAAI,KAAK,CAAC,uBAAuB,EAAE,SAAS,CAAC,CAAA;SACpD;QACD,OAAO,KAAK,CAAC,QAAQ,CAAC,KAAK,CAAC,KAAK,EAAE,KAAK,GAAG,MAAM,CAAC,CAAA;IACpD,CAAC;IAED,KAAK,CAAC,eAAe;QACnB,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,IAAI,CAAA;QAC5B,OAAO,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAA;IACpC,CAAC;CACF;AAxBD,kDAwBC;AAED,MAAa,eAAgB,SAAQ,oCAAsB;IAKzD,YAAY,UAAsB;QAChC,KAAK,CAAC,IAAA,mCAAmB,EAAC,OAAO,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAA;QAHlD,aAAQ,GAAa,EAAE,CAAA;QAIrB,IAAI,CAAC,KAAK,GAAG,IAAI,mBAAmB,CAAC,UAAU,CAAC,CAAA;IAClD,CAAC;IAED,KAAK,CAAC,WAAW;QACf,OAAO,IAAI,CAAC,QAAQ,CAAA;IACtB,CAAC;IAED,WAAW,CAAC,EACV,OAAO,EACP,KAAK,EACL,GAAG,GAKJ;QACC,OAAO,IAAI,iBAAU,CAAC,QAAQ,CAAC,EAAE;YAC/B,IAAI,CAAC,KAAK;iBACP,eAAe,EAAE;iBACjB,IAAI,CAAC,QAAQ,CAAC,EAAE;gBACf,IAAI,CAAC,QAAQ,GAAG,QAAQ,CAAA;YAC1B,CAAC,CAAC;iBACD,IAAI,CAAC,GAAG,EAAE,CACT,IAAI,CAAC,KAAK,CAAC,KAAK,CAAC,IAAI,CAAC,QAAQ,CAAC,OAAO,CAAC,OAAO,CAAC,EAAE,KAAK,EAAE,GAAG,CAAC,CAC7D;iBACA,IAAI,CAAC,GAAG,CAAC,EAAE;gBACV,QAAQ,CAAC,IAAI,CACX,IAAI,uBAAa,CAAC;oBAChB,QAAQ,EAAE,GAAG,OAAO,IAAI,KAAK,IAAI,GAAG,EAAE;oBACtC,GAAG,EAAE,GAAG;oBACR,KAAK;oBACL,GAAG;iBACJ,CAAC,CACH,CAAA;gBACD,QAAQ,CAAC,QAAQ,EAAE,CAAA;YACrB,CAAC,CAAC;iBACD,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;YAChC,OAAO,EAAE,WAAW,EAAE,GAAG,EAAE,GAAE,CAAC,EAAE,CAAA;QAClC,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,aAAa,EAAC,gBAAgB,IAAS,CAAC;CACzC;AAjDD,0CAiDC"}

package/dist/CramAdapter/configSchema.d.ts CHANGED Viewed

@@ -1,2 +1,41 @@
-declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot fetchSizeLimit
+     */
+    fetchSizeLimit: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot cramLocation
+     */
+    cramLocation: {
+        type: string;
+        defaultValue: {
+            uri: string;
+            locationType: string;
+        };
+    };
+    /**
+     * #slot craiLocation
+     */
+    craiLocation: {
+        type: string;
+        defaultValue: {
+            uri: string;
+            locationType: string;
+        };
+    };
+    /**
+     * #slot sequenceAdapter
+     * generally refers to the reference genome assembly's sequence adapter
+     * currently needs to be manually added
+     */
+    sequenceAdapter: {
+        type: string;
+        description: string;
+        defaultValue: null;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
 export default configSchema;

package/dist/HtsgetBamAdapter/configSchema.d.ts CHANGED Viewed

@@ -1,2 +1,27 @@
-declare const HtsgetBamAdapter: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const HtsgetBamAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    htsgetBase: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    htsgetTrackId: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    sequenceAdapter: {
+        type: string;
+        description: string;
+        defaultValue: null;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
 export default HtsgetBamAdapter;

package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import { AlignmentsDisplayModel } from '../models/model';
 declare function AlignmentsDisplay({ model }: {
     model: AlignmentsDisplayModel;

package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.js CHANGED Viewed

@@ -10,7 +10,7 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const ui_1 = require("@jbrowse/core/ui");
 const useStyles = (0, mui_1.makeStyles)()({
     resizeHandle: {
-        height: 2,
+        height: 5,
         position: 'absolute',
         zIndex: 2,
     },
@@ -25,7 +25,7 @@ function AlignmentsDisplay({ model }) {
         react_1.default.createElement(ui_1.ResizeHandle, { onDrag: delta => {
                 SNPCoverageDisplay.setHeight(SNPCoverageDisplay.height + delta);
                 return delta;
-            }, className: classes.resizeHandle, style: { top } }),
+            }, className: classes.resizeHandle, style: { top: top - 4 } }),
         react_1.default.createElement("div", { "data-testid": "Blockset-pileup", style: {
                 position: 'absolute',
                 top,

package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"AlignmentsDisplay.js","sourceRoot":"","sources":["../../../src/LinearAlignmentsDisplay/components/AlignmentsDisplay.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AACrC,uCAA0C;AAC1C,+DAAqD;AACrD,yCAA+C;AAK/C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,YAAY,EAAE;QACZ,MAAM,EAAE,CAAC;QACT,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,CAAC;KACV;CACF,CAAC,CAAA;AAEF,SAAS,iBAAiB,CAAC,EAAE,KAAK,EAAqC;IACrE,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IACnD,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,GAAG,GAAG,kBAAkB,CAAC,MAAM,CAAA;IACrC,OAAO,CACL,sDACe,WAAW,IAAA,uBAAO,EAAC,KAAK,EAAE,WAAW,CAAC,EAAE,EACrD,KAAK,EAAE,EAAE,QAAQ,EAAE,UAAU,EAAE;QAE/B,sDAAiB,sBAAsB;YACrC,8BAAC,kBAAkB,CAAC,kBAAkB,IAAC,KAAK,EAAE,kBAAkB,GAAI,CAChE;QACN,8BAAC,iBAAY,IACX,MAAM,EAAE,KAAK,CAAC,EAAE;gBACd,kBAAkB,CAAC,SAAS,CAAC,kBAAkB,CAAC,MAAM,GAAG,KAAK,CAAC,CAAA;gBAC/D,OAAO,KAAK,CAAA;YACd,CAAC,EACD,SAAS,EAAE,OAAO,CAAC,YAAY,EAC/B,KAAK,EAAE,EAAE,GAAG,EAAE,~~GACd~~;QAEF,sDACc,iBAAiB,EAC7B,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,GAAG;aACJ;YAED,8BAAC,aAAa,CAAC,kBAAkB,IAAC,KAAK,EAAE,aAAa,GAAI,CACtD,CACF,CACP,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,iBAAiB,CAAC,CAAA"}
1	+ {"version":3,"file":"AlignmentsDisplay.js","sourceRoot":"","sources":["../../../src/LinearAlignmentsDisplay/components/AlignmentsDisplay.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AACrC,uCAA0C;AAC1C,+DAAqD;AACrD,yCAA+C;AAK/C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,YAAY,EAAE;QACZ,MAAM,EAAE,CAAC;QACT,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,CAAC;KACV;CACF,CAAC,CAAA;AAEF,SAAS,iBAAiB,CAAC,EAAE,KAAK,EAAqC;IACrE,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,KAAK,CAAA;IACnD,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,GAAG,GAAG,kBAAkB,CAAC,MAAM,CAAA;IACrC,OAAO,CACL,sDACe,WAAW,IAAA,uBAAO,EAAC,KAAK,EAAE,WAAW,CAAC,EAAE,EACrD,KAAK,EAAE,EAAE,QAAQ,EAAE,UAAU,EAAE;QAE/B,sDAAiB,sBAAsB;YACrC,8BAAC,kBAAkB,CAAC,kBAAkB,IAAC,KAAK,EAAE,kBAAkB,GAAI,CAChE;QACN,8BAAC,iBAAY,IACX,MAAM,EAAE,KAAK,CAAC,EAAE;gBACd,kBAAkB,CAAC,SAAS,CAAC,kBAAkB,CAAC,MAAM,GAAG,KAAK,CAAC,CAAA;gBAC/D,OAAO,KAAK,CAAA;YACd,CAAC,EACD,SAAS,EAAE,OAAO,CAAC,YAAY,EAC/B,KAAK,EAAE,EAAE,GAAG,EAAE,GAAG,GAAG,CAAC,EAAE,GACvB;QAEF,sDACc,iBAAiB,EAC7B,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,GAAG;aACJ;YAED,8BAAC,aAAa,CAAC,kBAAkB,IAAC,KAAK,EAAE,aAAa,GAAI,CACtD,CACF,CACP,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,iBAAiB,CAAC,CAAA"}

package/dist/LinearAlignmentsDisplay/models/configSchema.d.ts CHANGED Viewed

@@ -4,4 +4,42 @@ import PluginManager from '@jbrowse/core/PluginManager';
  * has a "pileup" sub-display, where you can see individual reads and a
  * quantitative "snpcoverage" sub-display track showing SNP frequencies
  */
-export default function configModelFactory(pm: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export default function configModelFactory(pm: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    pileupDisplay: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+    /**
+     * #slot
+     */
+    snpCoverageDisplay: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+    /**
+     * #slot
+     */
+    height: {
+        type: string;
+        defaultValue: number;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    fetchSizeLimit: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    height: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    mouseover: {
+        type: string;
+        description: string;
+        defaultValue: string;
+        contextVariable: string[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>;

package/dist/LinearAlignmentsDisplay/models/model.d.ts CHANGED Viewed

@@ -3,6 +3,7 @@ import { Instance, IStateTreeNode } from 'mobx-state-tree';
 import { AnyConfigurationModel, AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
 import { MenuItem } from '@jbrowse/core/ui';
+import { FeatureDensityStats } from '@jbrowse/core/data_adapters/BaseAdapter';
 /**
  * #stateModel LinearAlignmentsDisplay
  * extends `BaseDisplay`
@@ -16,7 +17,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
     SNPCoverageDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
     snpCovHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
     type: import("mobx-state-tree").ISimpleType<"LinearAlignmentsDisplay">;
-    configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
+    configuration: AnyConfigurationSchemaType;
     heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     userFeatureScreenDensity: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     lowerPanelType: import("mobx-state-tree").IType<string | undefined, string, string>;
@@ -66,7 +67,9 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
     readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
     readonly DisplayMessageComponent: React.FC<any> | undefined;
     trackMenuItems(): MenuItem[];
-    readonly viewMenuActions: MenuItem[];
+    readonly viewMenuActions: MenuItem[]; /**
+     * #action
+     */
     regionCannotBeRendered(): undefined;
 } & {
     setError(error?: unknown): void;
@@ -88,6 +91,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
      * #getter
      */
     readonly height: any;
+    readonly featureIdUnderMouse: any;
 } & {
     /**
      * #getter
@@ -125,7 +129,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
     /**
      * #action
      */
-    updateStatsLimit(stats: unknown): void;
+    setFeatureDensityStatsLimit(stats?: FeatureDensityStats): void;
     /**
      * #action
      */
@@ -164,7 +168,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
     SNPCoverageDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
     snpCovHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
     type: import("mobx-state-tree").ISimpleType<"LinearAlignmentsDisplay">;
-    configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
+    configuration: AnyConfigurationSchemaType;
     heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     userFeatureScreenDensity: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     lowerPanelType: import("mobx-state-tree").IType<string | undefined, string, string>;

package/dist/LinearAlignmentsDisplay/models/model.js CHANGED Viewed

@@ -118,6 +118,10 @@ function stateModelFactory(pluginManager, configSchema) {
             var _a;
             return (_a = self.heightPreConfig) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)(self, 'height');
         },
+        get featureIdUnderMouse() {
+            return (self.PileupDisplay.featureIdUnderMouse ||
+                self.SNPCoverageDisplay.featureIdUnderMouse);
+        },
     }))
         .views(self => ({
         /**
@@ -187,9 +191,9 @@ function stateModelFactory(pluginManager, configSchema) {
         /**
          * #action
          */
-        updateStatsLimit(stats) {
-            self.PileupDisplay.updateStatsLimit(stats);
-            self.SNPCoverageDisplay.updateStatsLimit(stats);
+        setFeatureDensityStatsLimit(stats) {
+            self.PileupDisplay.setFeatureDensityStatsLimit(stats);
+            self.SNPCoverageDisplay.setFeatureDensityStatsLimit(stats);
         },
         /**
          * #action

package/dist/LinearAlignmentsDisplay/models/model.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"model.js","sourceRoot":"","sources":["../../../src/LinearAlignmentsDisplay/models/model.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,+BAAoC;AACpC,qDAOwB;AACxB,sEAAuC;AAEvC,UAAU;AACV,+DAKoC;AACpC,uEAAwE;~~AAIxE~~,MAAM,gBAAgB,GAAG,EAAE,CAAA;AAE3B,SAAS,qBAAqB,CAAC,aAA4B;IACzD,OAAO,CACL,aAAa;SACV,kBAAkB,EAAE;QACrB,mBAAmB;SAClB,MAAM,CAAC,CAAC,CAAC,EAAE,WAAC,OAAA,CAAA,MAAA,CAAC,CAAC,UAAU,0CAAE,IAAI,MAAK,yBAAyB,CAAA,EAAA,CAAC;QAC9D,mBAAmB;SAClB,MAAM,CAAC,CAAC,CAAC,EAAE,WAAC,OAAA,MAAA,CAAC,CAAC,UAAU,0CAAE,UAAU,CAAA,EAAA,CAAC,CACzC,CAAA;AACH,CAAC;AAED,SAAS,QAAQ,CACf,EAAK,EACL,EAAK;IAEL,OAAO,IAAA,yBAAS,EACd,EAAE,CAAC,CAAC,CAAC,IAAA,6BAAW,EAAC,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS,EAChC,EAAE,CAAC,CAAC,CAAC,IAAA,6BAAW,EAAC,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS,CACjC,CAAA;AACH,CAAC;AAED,SAAS,QAAQ,CAAC,IAA4B;IAC5C,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;IAClD,OAAO,CACL,aAAa;QACb,IAAA,yBAAO,EAAC,aAAa,CAAC;QACtB,kBAAkB;QAClB,IAAA,yBAAO,EAAC,kBAAkB,CAAC,CAC5B,CAAA;AACH,CAAC;AAED,SAAS,gBAAgB,CAAC,IAA4B;IACpD,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;IAClD,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,aAAa,CAAC,OAAO,EAAE;QAC7C,OAAM;KACP;IACD,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,OAAO,EAAE,kBAAkB,CAAC,OAAO,CAAC,EAAE;QAChE,kBAAkB,CAAC,UAAU,CAAC,IAAA,6BAAW,EAAC,aAAa,CAAC,OAAO,CAAC,CAAC,CAAA;KAClE;AACH,CAAC;AAED,SAAS,iBAAiB,CAAC,IAA4B;IACrD,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;IAClD,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,aAAa,CAAC,QAAQ,EAAE;QAC9C,OAAM;KACP;IACD,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,QAAQ,EAAE,kBAAkB,CAAC,QAAQ,CAAC,EAAE;QAClE,kBAAkB,CAAC,WAAW,CAAC,IAAA,6BAAW,EAAC,aAAa,CAAC,QAAQ,CAAC,CAAC,CAAA;KACpE;AACH,CAAC;AAED,SAAS,eAAe,CACtB,aAA4B,EAC5B,YAAwC;IAExC,MAAM,kBAAkB,GAAG,qBAAqB,CAAC,aAAa,CAAC,CAAC,GAAG,CACjE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,UAAU,CAClB,CAAA;IAED,OAAO,uBAAK,CAAC,KAAK,CAAC;QACjB;;;WAGG;QACH,aAAa,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,KAAK,CAAC,GAAG,kBAAkB,CAAC,CAAC;QAC9D;;;WAGG;QACH,kBAAkB,EAAE,uBAAK,CAAC,KAAK,CAC7B,aAAa,CAAC,cAAc,CAAC,0BAA0B,CAAC,CAAC,UAAU,CACpE;QACD;;WAEG;QACH,YAAY,EAAE,EAAE;QAChB;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,yBAAyB,CAAC;QAC9C;;WAEG;QACH,aAAa,EAAE,IAAA,sCAAsB,EAAC,YAAY,CAAC;QACnD;;WAEG;QACH,eAAe,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,MAAM,CAAC;QAC1C;;WAEG;QACH,wBAAwB,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,MAAM,CAAC;QACnD;;WAEG;QACH,cAAc,EAAE,qBAAqB;KACtC,CAAC,CAAA;AACJ,CAAC;AAED;;;GAGG;AACH,SAAS,iBAAiB,CACxB,aAA4B,EAC5B,YAAwC;IAExC,OAAO,uBAAK;SACT,OAAO,CACN,yBAAyB,EACzB,oBAAW,EACX,eAAe,CAAC,aAAa,EAAE,YAAY,CAAC,CAC7C;SACA,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,SAAS,EAAE,CAAC;KACb,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,YAAY,CAAC,SAAiB;YAC5B,IAAI,CAAC,SAAS,GAAG,SAAS,CAAA;QAC5B,CAAC;QAED;;WAEG;QACH,oBAAoB,CAAC,CAAS;YAC5B,IAAI,CAAC,YAAY,GAAG,CAAC,CAAA;QACvB,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,MAAM;;YACR,OAAO,MAAA,IAAI,CAAC,eAAe,mCAAI,IAAA,uBAAO,EAAC,IAAI,EAAE,QAAQ,CAAC,CAAA;QACxD,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,UAAU;YACZ,MAAM,IAAI,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,eAAe,CAAC,CAAA;YAC3C,OAAO;gBACL,GAAG,IAAI;gBACP,IAAI,EAAE,IAAI,CAAC,cAAc;gBACzB,SAAS,EAAE,GAAG,IAAI,CAAC,aAAa,CAAC,SAAS,IAAI,IAAI,CAAC,cAAc,MAAM,EAAE,yEAAyE;aACnJ,CAAA;QACH,CAAC;QAED;;WAEG;QACH,cAAc,CAAC,QAAgB,EAAE,EAAU;YACzC,OAAO,IAAI,CAAC,aAAa,CAAC,cAAc,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;QACxD,CAAC;QACD;;WAEG;QACH,iBAAiB,CAAC,EAAU;YAC1B,OAAO,IAAI,CAAC,aAAa,CAAC,iBAAiB,CAAC,EAAE,CAAC,CAAA;QACjD,CAAC;QAED;;WAEG;QACH,IAAI,QAAQ;YACV,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAA;QACpC,CAAC;QAED;;WAEG;QACH,IAAI,YAAY;;YACd,OAAO,MAAA,IAAI,CAAC,aAAa,0CAAE,YAAY,CAAA;QACzC,CAAC;QAED;;WAEG;QACH,IAAI,QAAQ;YACV,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAA;QACpC,CAAC;QAED;;WAEG;QACH,IAAI,YAAY;YACd,MAAM,IAAI,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,oBAAoB,CAAC,CAAA;YAChD,OAAO;gBACL,GAAG,IAAI;gBACP,SAAS,EAAE,GAAG,IAAI,CAAC,aAAa,CAAC,SAAS,kBAAkB,EAAE,yEAAyE;aACxI,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,qBAAqB,CAAC,aAAoC;YACxD,IAAI,CAAC,kBAAkB,GAAG;gBACxB,IAAI,EAAE,0BAA0B;gBAChC,aAAa;gBACb,MAAM,EAAE,IAAI,CAAC,YAAY;aAC1B,CAAA;QACH,CAAC;QACD;;WAEG;QACH,~~gBAAgB~~,CAAC,~~KAAc~~;~~YAC7B~~,IAAI,CAAC,aAAa,CAAC,~~gBAAgB~~,CAAC,KAAK,CAAC,CAAA;~~YAC1C~~,IAAI,CAAC,kBAAkB,CAAC,~~gBAAgB~~,CAAC,KAAK,CAAC,CAAA;~~QACjD~~,CAAC;QAED;;WAEG;QACH,gBAAgB,CAAC,aAAoC;YACnD,IAAI,CAAC,aAAa,GAAG;gBACnB,IAAI,EAAE,aAAa,CAAC,IAAI,IAAI,qBAAqB;gBACjD,aAAa;aACd,CAAA;QACH,CAAC;QACD;;WAEG;QACH,SAAS,CAAC,CAAS;YACjB,IAAI,CAAC,eAAe,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,gBAAgB,CAAC,CAAA;YACpD,OAAO,IAAI,CAAC,eAAe,CAAA;QAC7B,CAAC;QACD;;WAEG;QACH,iBAAiB,CAAC,IAAY;YAC5B,IAAI,CAAC,cAAc,GAAG,IAAI,CAAA;QAC5B,CAAC;QACD;;WAEG;QACH,YAAY,CAAC,QAAgB;YAC3B,MAAM,SAAS,GAAG,IAAI,CAAC,MAAM,CAAA;YAC7B,MAAM,SAAS,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,MAAM,GAAG,QAAQ,CAAC,CAAA;YACxD,OAAO,SAAS,GAAG,SAAS,CAAA;QAC9B,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,WAAW;YACT,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,MAAM,EACJ,kBAAkB,EAClB,aAAa,EACb,YAAY,EACZ,UAAU,GACX,GAAG,IAAI,CAAA;gBAER,IAAI,CAAC,kBAAkB,EAAE;oBACvB,IAAI,CAAC,qBAAqB,CAAC,YAAY,CAAC,CAAA;iBACzC;qBAAM,IACL,CAAC,IAAA,yBAAS,EACR,YAAY,EACZ,IAAA,6BAAW,EAAC,kBAAkB,CAAC,aAAa,CAAC,CAC9C,EACD;oBACA,kBAAkB,CAAC,SAAS,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;oBAC/C,kBAAkB,CAAC,SAAS,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;iBAChD;gBAED,IAAI,CAAC,aAAa,IAAI,IAAI,CAAC,cAAc,KAAK,aAAa,CAAC,IAAI,EAAE;oBAChE,IAAI,CAAC,gBAAgB,CAAC,UAAU,CAAC,CAAA;iBAClC;qBAAM,IACL,CAAC,IAAA,yBAAS,EAAC,UAAU,EAAE,IAAA,6BAAW,EAAC,aAAa,CAAC,aAAa,CAAC,CAAC,EAChE;oBACA,aAAa,CAAC,SAAS,CAAC,IAAI,CAAC,UAAU,CAAC,CAAA;iBACzC;gBAED,gBAAgB,CAAC,IAA8B,CAAC,CAAA;gBAChD,iBAAiB,CAAC,IAA8B,CAAC,CAAA;YACnD,CAAC,CAAC,CACH,CAAA;YAED,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,IAAI,CAAC,oBAAoB,CAAC,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAC,CAAA;YAC3D,CAAC,CAAC,CACH,CAAA;YAED,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,IAAI,CAAC,aAAa,CAAC,SAAS,CAC1B,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAC7C,CAAA;YACH,CAAC,CAAC,CACH,CAAA;QACH,CAAC;QACD;;WAEG;QACH,KAAK,CAAC,SAAS,CAAC,IAAmC;YACjD,MAAM,YAAY,GAAG,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAA;YACjE,MAAM,IAAA,WAAI,EAAC,GAAG,EAAE,CAAC,IAAI,CAAC,aAAa,CAAC,KAAK,CAAC,CAAA;YAC1C,OAAO,CACL;gBACE,yCAAI,MAAM,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,IAAI,CAAC,CAAK;gBACtD,qCAAG,SAAS,EAAE,eAAe,IAAI,CAAC,kBAAkB,CAAC,MAAM,GAAG,IAC3D,MAAM,IAAI,CAAC,aAAa,CAAC,SAAS,CAAC;oBAClC,GAAG,IAAI;oBACP,cAAc,EAAE,YAAY;iBAC7B,CAAC,CACA,CACH,CACJ,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,cAAc,EAAE,mBAAmB,EAAE,GAAG,IAAI,CAAA;QACpD,OAAO;YACL;;eAEG;YACH,cAAc;gBACZ,MAAM,KAAK,GAAG,qBAAqB,CAAC,aAAa,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC;oBAC3D,IAAI,EAAE,OAAO;oBACb,KAAK,EAAE,CAAC,CAAC,WAAW;oBACpB,OAAO,EAAE,CAAC,CAAC,IAAI,KAAK,IAAI,CAAC,aAAa,CAAC,IAAI;oBAC3C,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,iBAAiB,CAAC,CAAC,CAAC,IAAI,CAAC;iBAC9C,CAAC,CAAC,CAAA;gBACH,OAAO;oBACL,GAAG,mBAAmB,EAAE;oBACxB;wBACE,IAAI,EAAE,SAAS;wBACf,KAAK,EAAE,iBAAiB;wBACxB,OAAO,EAAE,IAAI,CAAC,aAAa,CAAC,cAAc,EAAE;qBAC7C;oBACD;wBACE,IAAI,EAAE,SAAS;wBACf,KAAK,EAAE,sBAAsB;wBAC7B,OAAO,EAAE,IAAI,CAAC,kBAAkB,CAAC,cAAc,EAAE;qBAClD;oBACD;wBACE,IAAI,EAAE,SAAS;wBACf,KAAK,EAAE,6BAA6B;wBACpC,OAAO,EAAE,KAAK;qBACf;iBACF,CAAA;YACH,CAAC;SACF,CAAA;IACH,CAAC,CAAC;SACD,kBAAkB,CAAC,IAAI,CAAC,EAAE;QACzB,IAAI,CAAC,IAAI,EAAE;YACT,OAAO,IAAI,CAAA;SACZ;QACD,mBAAmB;QACnB,MAAM,EAAE,MAAM,EAAE,GAAG,IAAI,EAAE,GAAG,IAAI,CAAA;QAChC,OAAO,EAAE,eAAe,EAAE,MAAM,EAAE,GAAG,IAAI,EAAE,CAAA;IAC7C,CAAC,CAAC,CAAA;AACN,CAAC;AAED,kBAAe,iBAAiB,CAAA"}
1	+ {"version":3,"file":"model.js","sourceRoot":"","sources":["../../../src/LinearAlignmentsDisplay/models/model.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,+BAAoC;AACpC,qDAOwB;AACxB,sEAAuC;AAEvC,UAAU;AACV,+DAKoC;AACpC,uEAAwE;AAKxE,MAAM,gBAAgB,GAAG,EAAE,CAAA;AAE3B,SAAS,qBAAqB,CAAC,aAA4B;IACzD,OAAO,CACL,aAAa;SACV,kBAAkB,EAAE;QACrB,mBAAmB;SAClB,MAAM,CAAC,CAAC,CAAC,EAAE,WAAC,OAAA,CAAA,MAAA,CAAC,CAAC,UAAU,0CAAE,IAAI,MAAK,yBAAyB,CAAA,EAAA,CAAC;QAC9D,mBAAmB;SAClB,MAAM,CAAC,CAAC,CAAC,EAAE,WAAC,OAAA,MAAA,CAAC,CAAC,UAAU,0CAAE,UAAU,CAAA,EAAA,CAAC,CACzC,CAAA;AACH,CAAC;AAED,SAAS,QAAQ,CACf,EAAK,EACL,EAAK;IAEL,OAAO,IAAA,yBAAS,EACd,EAAE,CAAC,CAAC,CAAC,IAAA,6BAAW,EAAC,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS,EAChC,EAAE,CAAC,CAAC,CAAC,IAAA,6BAAW,EAAC,EAAE,CAAC,CAAC,CAAC,CAAC,SAAS,CACjC,CAAA;AACH,CAAC;AAED,SAAS,QAAQ,CAAC,IAA4B;IAC5C,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;IAClD,OAAO,CACL,aAAa;QACb,IAAA,yBAAO,EAAC,aAAa,CAAC;QACtB,kBAAkB;QAClB,IAAA,yBAAO,EAAC,kBAAkB,CAAC,CAC5B,CAAA;AACH,CAAC;AAED,SAAS,gBAAgB,CAAC,IAA4B;IACpD,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;IAClD,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,aAAa,CAAC,OAAO,EAAE;QAC7C,OAAM;KACP;IACD,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,OAAO,EAAE,kBAAkB,CAAC,OAAO,CAAC,EAAE;QAChE,kBAAkB,CAAC,UAAU,CAAC,IAAA,6BAAW,EAAC,aAAa,CAAC,OAAO,CAAC,CAAC,CAAA;KAClE;AACH,CAAC;AAED,SAAS,iBAAiB,CAAC,IAA4B;IACrD,MAAM,EAAE,aAAa,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;IAClD,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,IAAI,CAAC,aAAa,CAAC,QAAQ,EAAE;QAC9C,OAAM;KACP;IACD,IAAI,CAAC,QAAQ,CAAC,aAAa,CAAC,QAAQ,EAAE,kBAAkB,CAAC,QAAQ,CAAC,EAAE;QAClE,kBAAkB,CAAC,WAAW,CAAC,IAAA,6BAAW,EAAC,aAAa,CAAC,QAAQ,CAAC,CAAC,CAAA;KACpE;AACH,CAAC;AAED,SAAS,eAAe,CACtB,aAA4B,EAC5B,YAAwC;IAExC,MAAM,kBAAkB,GAAG,qBAAqB,CAAC,aAAa,CAAC,CAAC,GAAG,CACjE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,UAAU,CAClB,CAAA;IAED,OAAO,uBAAK,CAAC,KAAK,CAAC;QACjB;;;WAGG;QACH,aAAa,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,KAAK,CAAC,GAAG,kBAAkB,CAAC,CAAC;QAC9D;;;WAGG;QACH,kBAAkB,EAAE,uBAAK,CAAC,KAAK,CAC7B,aAAa,CAAC,cAAc,CAAC,0BAA0B,CAAC,CAAC,UAAU,CACpE;QACD;;WAEG;QACH,YAAY,EAAE,EAAE;QAChB;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,yBAAyB,CAAC;QAC9C;;WAEG;QACH,aAAa,EAAE,IAAA,sCAAsB,EAAC,YAAY,CAAC;QACnD;;WAEG;QACH,eAAe,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,MAAM,CAAC;QAC1C;;WAEG;QACH,wBAAwB,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,MAAM,CAAC;QACnD;;WAEG;QACH,cAAc,EAAE,qBAAqB;KACtC,CAAC,CAAA;AACJ,CAAC;AAED;;;GAGG;AACH,SAAS,iBAAiB,CACxB,aAA4B,EAC5B,YAAwC;IAExC,OAAO,uBAAK;SACT,OAAO,CACN,yBAAyB,EACzB,oBAAW,EACX,eAAe,CAAC,aAAa,EAAE,YAAY,CAAC,CAC7C;SACA,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,SAAS,EAAE,CAAC;KACb,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,YAAY,CAAC,SAAiB;YAC5B,IAAI,CAAC,SAAS,GAAG,SAAS,CAAA;QAC5B,CAAC;QAED;;WAEG;QACH,oBAAoB,CAAC,CAAS;YAC5B,IAAI,CAAC,YAAY,GAAG,CAAC,CAAA;QACvB,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,MAAM;;YACR,OAAO,MAAA,IAAI,CAAC,eAAe,mCAAI,IAAA,uBAAO,EAAC,IAAI,EAAE,QAAQ,CAAC,CAAA;QACxD,CAAC;QAED,IAAI,mBAAmB;YACrB,OAAO,CACL,IAAI,CAAC,aAAa,CAAC,mBAAmB;gBACtC,IAAI,CAAC,kBAAkB,CAAC,mBAAmB,CAC5C,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,UAAU;YACZ,MAAM,IAAI,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,eAAe,CAAC,CAAA;YAC3C,OAAO;gBACL,GAAG,IAAI;gBACP,IAAI,EAAE,IAAI,CAAC,cAAc;gBACzB,SAAS,EAAE,GAAG,IAAI,CAAC,aAAa,CAAC,SAAS,IAAI,IAAI,CAAC,cAAc,MAAM,EAAE,yEAAyE;aACnJ,CAAA;QACH,CAAC;QAED;;WAEG;QACH,cAAc,CAAC,QAAgB,EAAE,EAAU;YACzC,OAAO,IAAI,CAAC,aAAa,CAAC,cAAc,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;QACxD,CAAC;QACD;;WAEG;QACH,iBAAiB,CAAC,EAAU;YAC1B,OAAO,IAAI,CAAC,aAAa,CAAC,iBAAiB,CAAC,EAAE,CAAC,CAAA;QACjD,CAAC;QAED;;WAEG;QACH,IAAI,QAAQ;YACV,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAA;QACpC,CAAC;QAED;;WAEG;QACH,IAAI,YAAY;;YACd,OAAO,MAAA,IAAI,CAAC,aAAa,0CAAE,YAAY,CAAA;QACzC,CAAC;QAED;;WAEG;QACH,IAAI,QAAQ;YACV,OAAO,IAAI,CAAC,aAAa,CAAC,QAAQ,CAAA;QACpC,CAAC;QAED;;WAEG;QACH,IAAI,YAAY;YACd,MAAM,IAAI,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,oBAAoB,CAAC,CAAA;YAChD,OAAO;gBACL,GAAG,IAAI;gBACP,SAAS,EAAE,GAAG,IAAI,CAAC,aAAa,CAAC,SAAS,kBAAkB,EAAE,yEAAyE;aACxI,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,qBAAqB,CAAC,aAAoC;YACxD,IAAI,CAAC,kBAAkB,GAAG;gBACxB,IAAI,EAAE,0BAA0B;gBAChC,aAAa;gBACb,MAAM,EAAE,IAAI,CAAC,YAAY;aAC1B,CAAA;QACH,CAAC;QACD;;WAEG;QACH,2BAA2B,CAAC,KAA2B;YACrD,IAAI,CAAC,aAAa,CAAC,2BAA2B,CAAC,KAAK,CAAC,CAAA;YACrD,IAAI,CAAC,kBAAkB,CAAC,2BAA2B,CAAC,KAAK,CAAC,CAAA;QAC5D,CAAC;QAED;;WAEG;QACH,gBAAgB,CAAC,aAAoC;YACnD,IAAI,CAAC,aAAa,GAAG;gBACnB,IAAI,EAAE,aAAa,CAAC,IAAI,IAAI,qBAAqB;gBACjD,aAAa;aACd,CAAA;QACH,CAAC;QACD;;WAEG;QACH,SAAS,CAAC,CAAS;YACjB,IAAI,CAAC,eAAe,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,gBAAgB,CAAC,CAAA;YACpD,OAAO,IAAI,CAAC,eAAe,CAAA;QAC7B,CAAC;QACD;;WAEG;QACH,iBAAiB,CAAC,IAAY;YAC5B,IAAI,CAAC,cAAc,GAAG,IAAI,CAAA;QAC5B,CAAC;QACD;;WAEG;QACH,YAAY,CAAC,QAAgB;YAC3B,MAAM,SAAS,GAAG,IAAI,CAAC,MAAM,CAAA;YAC7B,MAAM,SAAS,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,MAAM,GAAG,QAAQ,CAAC,CAAA;YACxD,OAAO,SAAS,GAAG,SAAS,CAAA;QAC9B,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,WAAW;YACT,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,MAAM,EACJ,kBAAkB,EAClB,aAAa,EACb,YAAY,EACZ,UAAU,GACX,GAAG,IAAI,CAAA;gBAER,IAAI,CAAC,kBAAkB,EAAE;oBACvB,IAAI,CAAC,qBAAqB,CAAC,YAAY,CAAC,CAAA;iBACzC;qBAAM,IACL,CAAC,IAAA,yBAAS,EACR,YAAY,EACZ,IAAA,6BAAW,EAAC,kBAAkB,CAAC,aAAa,CAAC,CAC9C,EACD;oBACA,kBAAkB,CAAC,SAAS,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;oBAC/C,kBAAkB,CAAC,SAAS,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;iBAChD;gBAED,IAAI,CAAC,aAAa,IAAI,IAAI,CAAC,cAAc,KAAK,aAAa,CAAC,IAAI,EAAE;oBAChE,IAAI,CAAC,gBAAgB,CAAC,UAAU,CAAC,CAAA;iBAClC;qBAAM,IACL,CAAC,IAAA,yBAAS,EAAC,UAAU,EAAE,IAAA,6BAAW,EAAC,aAAa,CAAC,aAAa,CAAC,CAAC,EAChE;oBACA,aAAa,CAAC,SAAS,CAAC,IAAI,CAAC,UAAU,CAAC,CAAA;iBACzC;gBAED,gBAAgB,CAAC,IAA8B,CAAC,CAAA;gBAChD,iBAAiB,CAAC,IAA8B,CAAC,CAAA;YACnD,CAAC,CAAC,CACH,CAAA;YAED,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,IAAI,CAAC,oBAAoB,CAAC,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAC,CAAA;YAC3D,CAAC,CAAC,CACH,CAAA;YAED,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EAAC,GAAG,EAAE;gBACX,IAAI,CAAC,aAAa,CAAC,SAAS,CAC1B,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAC7C,CAAA;YACH,CAAC,CAAC,CACH,CAAA;QACH,CAAC;QACD;;WAEG;QACH,KAAK,CAAC,SAAS,CAAC,IAAmC;YACjD,MAAM,YAAY,GAAG,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,kBAAkB,CAAC,MAAM,CAAA;YACjE,MAAM,IAAA,WAAI,EAAC,GAAG,EAAE,CAAC,IAAI,CAAC,aAAa,CAAC,KAAK,CAAC,CAAA;YAC1C,OAAO,CACL;gBACE,yCAAI,MAAM,IAAI,CAAC,kBAAkB,CAAC,SAAS,CAAC,IAAI,CAAC,CAAK;gBACtD,qCAAG,SAAS,EAAE,eAAe,IAAI,CAAC,kBAAkB,CAAC,MAAM,GAAG,IAC3D,MAAM,IAAI,CAAC,aAAa,CAAC,SAAS,CAAC;oBAClC,GAAG,IAAI;oBACP,cAAc,EAAE,YAAY;iBAC7B,CAAC,CACA,CACH,CACJ,CAAA;QACH,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,cAAc,EAAE,mBAAmB,EAAE,GAAG,IAAI,CAAA;QACpD,OAAO;YACL;;eAEG;YACH,cAAc;gBACZ,MAAM,KAAK,GAAG,qBAAqB,CAAC,aAAa,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC;oBAC3D,IAAI,EAAE,OAAO;oBACb,KAAK,EAAE,CAAC,CAAC,WAAW;oBACpB,OAAO,EAAE,CAAC,CAAC,IAAI,KAAK,IAAI,CAAC,aAAa,CAAC,IAAI;oBAC3C,OAAO,EAAE,GAAG,EAAE,CAAC,IAAI,CAAC,iBAAiB,CAAC,CAAC,CAAC,IAAI,CAAC;iBAC9C,CAAC,CAAC,CAAA;gBACH,OAAO;oBACL,GAAG,mBAAmB,EAAE;oBACxB;wBACE,IAAI,EAAE,SAAS;wBACf,KAAK,EAAE,iBAAiB;wBACxB,OAAO,EAAE,IAAI,CAAC,aAAa,CAAC,cAAc,EAAE;qBAC7C;oBACD;wBACE,IAAI,EAAE,SAAS;wBACf,KAAK,EAAE,sBAAsB;wBAC7B,OAAO,EAAE,IAAI,CAAC,kBAAkB,CAAC,cAAc,EAAE;qBAClD;oBACD;wBACE,IAAI,EAAE,SAAS;wBACf,KAAK,EAAE,6BAA6B;wBACpC,OAAO,EAAE,KAAK;qBACf;iBACF,CAAA;YACH,CAAC;SACF,CAAA;IACH,CAAC,CAAC;SACD,kBAAkB,CAAC,IAAI,CAAC,EAAE;QACzB,IAAI,CAAC,IAAI,EAAE;YACT,OAAO,IAAI,CAAA;SACZ;QACD,mBAAmB;QACnB,MAAM,EAAE,MAAM,EAAE,GAAG,IAAI,EAAE,GAAG,IAAI,CAAA;QAChC,OAAO,EAAE,eAAe,EAAE,MAAM,EAAE,GAAG,IAAI,EAAE,CAAA;IAC7C,CAAC,CAAC,CAAA;AACN,CAAC;AAED,kBAAe,iBAAiB,CAAA"}

package/dist/LinearPileupDisplay/components/ColorByModifications.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import { ObservableMap } from 'mobx';
 declare function ColorByTagDlg(props: {
     model: {

package/dist/LinearPileupDisplay/components/ColorByTag.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 declare function ColorByTagDlg(props: {
     model: {
         setColorScheme: Function;

package/dist/LinearPileupDisplay/components/LinearPileupDisplayBlurb.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 export interface LinearPileupDisplayBlurbProps {
     model: {
         sortedBy?: {

package/dist/LinearPileupDisplay/components/SetFeatureHeight.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 declare function SetFeatureHeightDlg(props: {
     model: {
         setFeatureHeight: (arg?: number) => void;

package/dist/LinearPileupDisplay/components/SetMaxHeight.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 declare function SetMaxHeightDlg(props: {
     model: {
         maxHeight?: number;

package/dist/LinearPileupDisplay/components/SetMaxHeight.js CHANGED Viewed

@@ -28,11 +28,11 @@ const mobx_react_1 = require("mobx-react");
 const material_1 = require("@mui/material");
 const ui_1 = require("@jbrowse/core/ui");
 const mui_1 = require("tss-react/mui");
-const useStyles = (0, mui_1.makeStyles)()(theme => ({
+const useStyles = (0, mui_1.makeStyles)()({
     root: {
         width: 500,
     },
-}));
+});
 function SetMaxHeightDlg(props) {
     const { model, handleClose } = props;
     const { classes } = useStyles();
@@ -41,9 +41,7 @@ function SetMaxHeightDlg(props) {
     return (react_1.default.createElement(ui_1.Dialog, { open: true, onClose: handleClose, title: "Filter options" },
         react_1.default.createElement(material_1.DialogContent, { className: classes.root },
             react_1.default.createElement(material_1.Typography, null, "Set max height for the track. For example, you can increase this if the layout says \"Max height reached\""),
-            react_1.default.createElement(material_1.TextField, { value: max, onChange: event => {
-                    setMax(event.target.value);
-                }, placeholder: "Enter max height for layout" }),
+            react_1.default.createElement(material_1.TextField, { value: max, onChange: event => setMax(event.target.value), placeholder: "Enter max height for layout" }),
             react_1.default.createElement(material_1.DialogActions, null,
                 react_1.default.createElement(material_1.Button, { variant: "contained", color: "primary", type: "submit", autoFocus: true, onClick: () => {
                         model.setMaxHeight(max !== '' && !Number.isNaN(+max) ? +max : undefined);

package/dist/LinearPileupDisplay/components/SetMaxHeight.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"SetMaxHeight.js","sourceRoot":"","sources":["../../../src/LinearPileupDisplay/components/SetMaxHeight.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AACvC,2CAAqC;AACrC,4CAMsB;AACtB,yCAAyC;AACzC,uCAA0C;AAE1C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC~~,KAAK,CAAC,EAAE,CAAC,CAAC~~;~~IACvC~~,IAAI,EAAE;QACJ,KAAK,EAAE,GAAG;KACX;CACF,CAAC,~~CAAC,~~CAAA;~~AAEH~~,SAAS,eAAe,CAAC,KAMxB;IACC,MAAM,EAAE,KAAK,EAAE,WAAW,EAAE,GAAG,KAAK,CAAA;IACpC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,SAAS,GAAG,EAAE,EAAE,GAAG,KAAK,CAAA;IAChC,MAAM,CAAC,GAAG,EAAE,MAAM,CAAC,GAAG,IAAA,gBAAQ,EAAC,GAAG,SAAS,EAAE,CAAC,CAAA;IAE9C,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,gBAAgB;QACvD,8BAAC,wBAAa,IAAC,SAAS,EAAE,OAAO,CAAC,IAAI;YACpC,8BAAC,qBAAU,qHAGE;YACb,8BAAC,oBAAS,IACR,KAAK,EAAE,GAAG,EACV,QAAQ,EAAE,KAAK,CAAC,EAAE~~;oBAChB~~,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,~~CAAA;gBAC5B~~,~~CAAC,EACD,~~WAAW,EAAC,6BAA6B,GACzC;YACF,8BAAC,wBAAa;gBACZ,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,IAAI,EAAC,QAAQ,EACb,SAAS,QACT,OAAO,EAAE,GAAG,EAAE;wBACZ,KAAK,CAAC,YAAY,CAChB,GAAG,KAAK,EAAE,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,SAAS,CACrD,CAAA;wBACD,WAAW,EAAE,CAAA;oBACf,CAAC,aAGM;gBACT,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,aAGrB,CACK,CACF,CACT,CACV,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,eAAe,CAAC,CAAA"}
1	+ {"version":3,"file":"SetMaxHeight.js","sourceRoot":"","sources":["../../../src/LinearPileupDisplay/components/SetMaxHeight.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AACvC,2CAAqC;AACrC,4CAMsB;AACtB,yCAAyC;AACzC,uCAA0C;AAE1C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,IAAI,EAAE;QACJ,KAAK,EAAE,GAAG;KACX;CACF,CAAC,CAAA;AAEF,SAAS,eAAe,CAAC,KAMxB;IACC,MAAM,EAAE,KAAK,EAAE,WAAW,EAAE,GAAG,KAAK,CAAA;IACpC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,SAAS,GAAG,EAAE,EAAE,GAAG,KAAK,CAAA;IAChC,MAAM,CAAC,GAAG,EAAE,MAAM,CAAC,GAAG,IAAA,gBAAQ,EAAC,GAAG,SAAS,EAAE,CAAC,CAAA;IAE9C,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,gBAAgB;QACvD,8BAAC,wBAAa,IAAC,SAAS,EAAE,OAAO,CAAC,IAAI;YACpC,8BAAC,qBAAU,qHAGE;YACb,8BAAC,oBAAS,IACR,KAAK,EAAE,GAAG,EACV,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,EAC7C,WAAW,EAAC,6BAA6B,GACzC;YACF,8BAAC,wBAAa;gBACZ,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,IAAI,EAAC,QAAQ,EACb,SAAS,QACT,OAAO,EAAE,GAAG,EAAE;wBACZ,KAAK,CAAC,YAAY,CAChB,GAAG,KAAK,EAAE,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,SAAS,CACrD,CAAA;wBACD,WAAW,EAAE,CAAA;oBACf,CAAC,aAGM;gBACT,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,aAGrB,CACK,CACF,CACT,CACV,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,eAAe,CAAC,CAAA"}

package/dist/LinearPileupDisplay/components/SortByTag.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 declare function SortByTagDlg(props: {
     model: {
         setSortedBy: Function;

package/dist/LinearPileupDisplay/configSchema.d.ts CHANGED Viewed

@@ -1,3 +1,59 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare function configSchemaF(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare function configSchemaF(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    defaultRendering: {
+        type: string;
+        model: import("mobx-state-tree").ISimpleType<string>;
+        defaultValue: string;
+    };
+    /**
+     * #slot
+     */
+    renderers: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        PileupRenderer: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    /**
+     * #slot
+     */
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot
+     */
+    colorScheme: {
+        type: string;
+        model: import("mobx-state-tree").ISimpleType<string>;
+        description: string;
+        defaultValue: string;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    renderer: import("mobx-state-tree").IAnyModelType;
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    fetchSizeLimit: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    height: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    mouseover: {
+        type: string;
+        description: string;
+        defaultValue: string;
+        contextVariable: string[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>, undefined>>;
 export default configSchemaF;